Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold152
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2945013
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 7 of 18
Found at i:1097354 original size:33 final size:33
Alignment explanation
Indices: 1097307--1097380 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
1097297 ATTATCACTC
**
1097307 CTATCTCTTTTCCTATCATCCCTCCTATCTCTA
1 CTATCTCTCCTCCTATCATCCCTCCTATCTCTA
*
1097340 CTATCTCTCCTCCTATCATCCCTCCTATCTCTT
1 CTATCTCTCCTCCTATCATCCCTCCTATCTCTA
*
1097373 CTTTCTCT
1 CTATCTCT
1097381 TTGAGGGCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.12, C:0.42, G:0.00, T:0.46
Consensus pattern (33 bp):
CTATCTCTCCTCCTATCATCCCTCCTATCTCTA
Found at i:1101714 original size:42 final size:42
Alignment explanation
Indices: 1101646--1101777 Score: 185
Period size: 42 Copynumber: 3.1 Consensus size: 42
1101636 TCACTCTTCC
* * *
1101646 ATCT-TCTTCTCTCCTCCTCCTGTCATCCCTCCTCTCTCTATT
1 ATCTCTCTTGTCT-CTCCTCCTATCATCCCTCCTCTCTCTACT
*
1101688 ATCTCTCTTGTCTCTCCTCCTATCATCCCTCCTATCTCTACT
1 ATCTCTCTTGTCTCTCCTCCTATCATCCCTCCTCTCTCTACT
* *
1101730 ATCTCTCCTGTCTCTCCTCCTATCATCCCTCCTCTCTCTTCT
1 ATCTCTCTTGTCTCTCCTCCTATCATCCCTCCTCTCTCTACT
*
1101772 TTCTCT
1 ATCTCT
1101778 TTGAGGGCTA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 74 0.91
43 7 0.09
ACGTcount: A:0.08, C:0.45, G:0.02, T:0.45
Consensus pattern (42 bp):
ATCTCTCTTGTCTCTCCTCCTATCATCCCTCCTCTCTCTACT
Found at i:1102552 original size:15 final size:15
Alignment explanation
Indices: 1102514--1102552 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1102504 CAAATGCTGG
*
1102514 TTTTTTTTCCTCTCT
1 TTTTTTTTTCTCTCT
* *
1102529 TTTTGTTTTCTTTCT
1 TTTTTTTTTCTCTCT
1102544 TTTTTTTTT
1 TTTTTTTTT
1102553 GTATTCTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTTTTTTCTCTCT
Found at i:1103501 original size:24 final size:24
Alignment explanation
Indices: 1103469--1103514 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
1103459 TGGGTAACAA
1103469 AAGCATGTTCTCCTTATTCAAGTG
1 AAGCATGTTCTCCTTATTCAAGTG
1103493 AAGCATGTTCTCCTTATTCAAG
1 AAGCATGTTCTCCTTATTCAAG
1103515 ATATTGATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (24 bp):
AAGCATGTTCTCCTTATTCAAGTG
Found at i:1105218 original size:29 final size:30
Alignment explanation
Indices: 1105174--1105255 Score: 114
Period size: 29 Copynumber: 2.8 Consensus size: 30
1105164 AGTTCATGTG
*
1105174 TTTTAGTTGACATTTAATTCCTTTTAGT-A
1 TTTTAGTTGACTTTTAATTCCTTTTAGTGA
*
1105203 TTTTAGTTGACTTTTAATTCCTTTTTGTGA
1 TTTTAGTTGACTTTTAATTCCTTTTAGTGA
*
1105233 -TTTAGTTGACTCTTAATTACCTT
1 TTTTAGTTGACTTTTAATT-CCTT
1105256 AATTTCCATT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
29 43 0.90
30 5 0.10
ACGTcount: A:0.21, C:0.12, G:0.11, T:0.56
Consensus pattern (30 bp):
TTTTAGTTGACTTTTAATTCCTTTTAGTGA
Found at i:1106265 original size:32 final size:32
Alignment explanation
Indices: 1106224--1106290 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
1106214 CCTATTGTGT
1106224 TGAGGATTATGTGAAAGAATTTAAGATGCTAA
1 TGAGGATTATGTGAAAGAATTTAAGATGCTAA
1106256 TGAGGATTATGTGAAAGAATTTAAGATGCTAA
1 TGAGGATTATGTGAAAGAATTTAAGATGCTAA
1106288 TGA
1 TGA
1106291 TGCAATGTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.31
Consensus pattern (32 bp):
TGAGGATTATGTGAAAGAATTTAAGATGCTAA
Found at i:1112370 original size:33 final size:33
Alignment explanation
Indices: 1112324--1112424 Score: 139
Period size: 33 Copynumber: 3.1 Consensus size: 33
1112314 TTCTTCTCTC
* * * *
1112324 CTCCTCCTGTCATCCATCCTCTCTCTATTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCT
*
1112357 CTCCTCCTATCATCCCTCCTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCT
* *
1112390 CTCCTCCTATCATCCCTCCTATCTCTTCTTTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCT
1112423 CT
1 CT
1112425 TTGAGGGCTA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.11, C:0.46, G:0.01, T:0.43
Consensus pattern (33 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCT
Found at i:1112374 original size:12 final size:11
Alignment explanation
Indices: 1112352--1112414 Score: 76
Period size: 12 Copynumber: 5.5 Consensus size: 11
1112342 CTCTCTCTAT
1112352 TATCTCTCCTCC
1 TATCTC-CCTCC
1112364 TATCATCCCTCC
1 TATC-TCCCTCC
1112376 TATCT--CTCC
1 TATCTCCCTCC
1112385 TATCTCTCCTCC
1 TATCTC-CCTCC
1112397 TATCATCCCTCC
1 TATC-TCCCTCC
1112409 TATCTC
1 TATCTC
1112415 TTCTTTCTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
9 9 0.20
11 3 0.07
12 30 0.65
13 4 0.09
ACGTcount: A:0.13, C:0.48, G:0.00, T:0.40
Consensus pattern (11 bp):
TATCTCCCTCC
Found at i:1112379 original size:24 final size:24
Alignment explanation
Indices: 1112352--1112415 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 24
1112342 CTCTCTCTAT
1112352 TATCTCTCCTCCTATCATC-CCTCC
1 TATCTCTCCTCCTATC-TCTCCTCC
1112376 TA--TCT-CTCCTATCTCTCCTCC
1 TATCTCTCCTCCTATCTCTCCTCC
1112397 TATCATC-CCTCCTATCTCT
1 TATC-TCTCCTCCTATCTCT
1112416 TCTTTCTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
20 2 0.06
21 15 0.43
22 3 0.09
24 15 0.43
ACGTcount: A:0.12, C:0.47, G:0.00, T:0.41
Consensus pattern (24 bp):
TATCTCTCCTCCTATCTCTCCTCC
Found at i:1114240 original size:9 final size:9
Alignment explanation
Indices: 1114228--1114288 Score: 58
Period size: 9 Copynumber: 7.1 Consensus size: 9
1114218 CTCTCTCTAT
1114228 TATCTCTCC
1 TATCTCTCC
1114237 TATCTCTCC
1 TATCTCTCC
*
1114246 T-TCTAT-C
1 TATCTCTCC
*
1114253 -ATCCCT-C
1 TATCTCTCC
*
1114260 TAATCTCTAC
1 T-ATCTCTCC
1114270 TATCTCTCC
1 TATCTCTCC
1114279 TATCTCTCC
1 TATCTCTCC
1114288 T
1 T
1114289 TCTATTATCC
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
7 5 0.12
8 4 0.09
9 32 0.74
10 2 0.05
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (9 bp):
TATCTCTCC
Found at i:1114318 original size:42 final size:42
Alignment explanation
Indices: 1114221--1114300 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
1114211 ATCCCTCCTC
*
1114221 TCTCTATTATCTCTCCTATCTCTCCTTCTATCATCCCTCTAA
1 TCTCTACTATCTCTCCTATCTCTCCTTCTATCATCCCTCTAA
*
1114263 TCTCTACTATCTCTCCTATCTCTCCTTCTATTATCCCT
1 TCTCTACTATCTCTCCTATCTCTCCTTCTATCATCCCT
1114301 TGTATCTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.15, C:0.39, G:0.00, T:0.46
Consensus pattern (42 bp):
TCTCTACTATCTCTCCTATCTCTCCTTCTATCATCCCTCTAA
Found at i:1116480 original size:44 final size:44
Alignment explanation
Indices: 1116431--1116523 Score: 150
Period size: 44 Copynumber: 2.1 Consensus size: 44
1116421 TTATTATTTT
**
1116431 GGTTTAATTAAGAATTGGGCTTGTTAGCACAATAACTCCATTAG
1 GGTTTAATTAAGAATCAGGCTTGTTAGCACAATAACTCCATTAG
* *
1116475 GGTTTAATTAAGAATCAGGCTTGTTAGCATAATAAGTCCATTAG
1 GGTTTAATTAAGAATCAGGCTTGTTAGCACAATAACTCCATTAG
1116519 GGTTT
1 GGTTT
1116524 GTGTTAATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (44 bp):
GGTTTAATTAAGAATCAGGCTTGTTAGCACAATAACTCCATTAG
Found at i:1118366 original size:14 final size:14
Alignment explanation
Indices: 1118347--1118375 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1118337 CTTGGATTCT
1118347 AGAAGTAATTTTGA
1 AGAAGTAATTTTGA
1118361 AGAAGTAATTTTGA
1 AGAAGTAATTTTGA
1118375 A
1 A
1118376 TCTTTTCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (14 bp):
AGAAGTAATTTTGA
Found at i:1118893 original size:153 final size:152
Alignment explanation
Indices: 1118615--1118893 Score: 339
Period size: 152 Copynumber: 1.8 Consensus size: 152
1118605 TTAGGAAAAC
* * *
1118615 TTTTTTTTTCCACCATTTTCCTTAAAATGAATGTTTATCCATCAAATAATACAAACTTGGATTCT
1 TTTTTTTTTCCACCATTTTCCTTAAAATGAAAGTTTATCCATCAAATAAGACAAACTTGGACTCT
* * * *
1118680 AGAAGTAATATCAAATATTTTCATGATTTGGCACCATAAAGACGTTGTCCTCATTGGGATATAGA
66 AGAAGTAATATAAAATATTTTCATGATTTGGCACCATAAACACATTCTCCTCATTGGGATATAGA
1118745 TGCTTTTGTCACAAGAAAATCT
131 TGCTTTTGTCACAAGAAAATCT
* * * *
1118767 TTTTTTTTTCCACCATTTTTCTTTAAAA-GAAAGTTTATCCCTCAAGTAAGATAAACTTGGACTC
1 TTTTTTTTTCCACCA-TTTTCCTTAAAATGAAAGTTTATCCATCAAATAAGACAAACTTGGACTC
* * * * * * *
1118831 TCGTAA-TAATCTAAAATCTTTT-TTGTTATTTGGTAGCATAAACACATTCTTCTCATTGGGATA
65 TAG-AAGTAATATAAAATATTTTCATG--ATTTGGCACCATAAACACATTCTCCTCATTGGGATA
1118894 CATGATATGA
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
151 2 0.02
152 60 0.57
153 43 0.41
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (152 bp):
TTTTTTTTTCCACCATTTTCCTTAAAATGAAAGTTTATCCATCAAATAAGACAAACTTGGACTCT
AGAAGTAATATAAAATATTTTCATGATTTGGCACCATAAACACATTCTCCTCATTGGGATATAGA
TGCTTTTGTCACAAGAAAATCT
Found at i:1119755 original size:158 final size:157
Alignment explanation
Indices: 1119534--1119963 Score: 369
Period size: 158 Copynumber: 2.7 Consensus size: 157
1119524 ATGCTTTGTT
* * * * * * * * *
1119534 TTGCAAGAAAATCATTT-TTTTGACCATTTTGCTTAGAAACAAAGTTCATCCCTTAACTGAGACA
1 TTGCAAGAAAAGCTTTTCTTTTCACCATTTTCCTTATAATCAAAGTTCATCCCTCAAATAAGACA
*
1119598 AACTTGGACTCTGGAAGTAATCTCAAATCTTTTCATGATTTGGCACTATAAAG-ACATTC-TGCT
66 AACTTGGACTCTGG-AGTAATATC-AATCTTTTCATGATTTGGCAC-ATAAAGCACATTCAT-CT
1119661 C-TTTAGGATACACGATATTGATGCTCCGATA
127 CATTT-GGATACACGATATTGATGCTCCGATA
* ** *
1119692 TTGCAAGAAAAG-TTTT-TTTTCCACCATTTTTCTT-TGAATCAAAGTTTGTCTGC-CAAATAAG
1 TTGCAAGAAAAGCTTTTCTTTT-CACCATTTTCCTTAT-AATCAAAGTTCATC-CCTCAAATAAG
* * * * * *
1119753 ACAAACATGGATTTTTGTGA-TAATATCCATTCTTTTCATGATTGGGCAACA-AATGCACATTCA
63 ACAAACTTGGA-CTCTG-GAGTAATAT-CAATCTTTTCATGATTTGGC-ACATAAAGCACATTCA
* * ** * *
1119816 TCTCATTTGGATACATGATATTGTTGCTTTGGTT
124 TCTCATTTGGATACACGATATTGATGCTCCGATA
* * * *
1119850 TTGCTAGGAAAGCTTTTCTTTTCACCATTTTCCTTATAGTGAAAGTTCATCCCTCAAATAAGACA
1 TTGCAAGAAAAGCTTTTCTTTTCACCATTTTCCTTATAATCAAAGTTCATCCCTCAAATAAGACA
* *
1119915 AACTTGGACTCTAGTAGTAATTTC-ATCTTTTCATGATTTGGCACCATAA
66 AACTTGGACTCT-GGAGTAATATCAATCTTTTCATGATTTGGCA-CATAA
1119964 GGACCTTGTC
Statistics
Matches: 214, Mismatches: 40, Indels: 36
0.74 0.14 0.12
Matches are distributed among these distances:
156 1 0.00
157 28 0.13
158 117 0.55
159 62 0.29
160 6 0.03
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (157 bp):
TTGCAAGAAAAGCTTTTCTTTTCACCATTTTCCTTATAATCAAAGTTCATCCCTCAAATAAGACA
AACTTGGACTCTGGAGTAATATCAATCTTTTCATGATTTGGCACATAAAGCACATTCATCTCATT
TGGATACACGATATTGATGCTCCGATA
Found at i:1120036 original size:316 final size:317
Alignment explanation
Indices: 1119709--1120289 Score: 681
Period size: 316 Copynumber: 1.8 Consensus size: 317
1119699 AAAAGTTTTT
* ** ** *
1119709 TTTCCACCATTTTTCTTTGAATCAAAGTTTGTCTGCC-AAATAAGACAAACATGGATTTTTGTGA
1 TTTCCACCATTTTCCTTAAAATCAAAGTTCATC--CCTAAATAAGACAAACATGGATTCTTGTGA
* ** * *
1119773 TAATATCCATTCTTT-TCATGATTGGGCAACAAATGCACATTCAT-CTCATTTGGATACATGATA
64 TAATATCCATT-TTTAACATGATTGGGCAACAAAAACACATTC-TCCCCATTAGGATACATGATA
**** * * * * * *
1119836 TTGTTGCTTTGGT-TT-TGCTAGGAAAGCTTTTCTTTTCACCATTTTCCTTATAGTGAAAGTTCA
127 TTAACACTTTGGTCTTATG--AGAAAACCTTTTCTTTTCACCATTTTCCTTAGAATCAAAGATCA
* * * * *
1119899 TCCCTCAAATAAGACAAACTTGGACTCTAGTAG-TAATTTC-ATCTTTTCATGATTTGGCACCAT
190 TCCCTCAAATAAGACAAACTTGGACTCTAGAAGAAAATATCAATATTTCCATGATTTGGCACCAT
*
1119962 AAGGACCTTGTCCTTATTGAGATACATGACATTGACACTTTGGTTTCATAGGAAAGACTCTTC
255 AAAGACCTTGTCCTTATTGAGATACATGACATTGACACTTTGGTTTCATAGGAAAGACTCTTC
* *
1120025 TTTCCACCATTTTCCTTAAAATCAAAGTTCATCCCTTAAATGAGACAAACATGGATTCTTGTTAT
1 TTTCCACCATTTTCCTTAAAATCAAAGTTCATCCC-TAAATAAGACAAACATGGATTCTTGTGAT
* * * **
1120090 AATCTCCATTTTTAACCTGTTTGGGCAACAAAAACATGTTCTCCCCATTAGGATACATGATATTA
65 AATATCCATTTTTAACATGATTGGGCAACAAAAACACATTCTCCCCATTAGGATACATGATATTA
* *
1120155 ACACTTTGGTCTTATGAGAAAACCTTTTCTTTTCACCATTTTCCTTAGAATCAATGATCATCCTT
130 ACACTTTGGTCTTATGAGAAAACCTTTTCTTTTCACCATTTTCCTTAGAATCAAAGATCATCCCT
* ** *
1120220 TAAATGCGACAAACTTGGATTCTAGAAGAAAATATCAAATATTTCCATGATTTGGCACCATAAAG
195 CAAATAAGACAAACTTGGACTCTAGAAGAAAATATC-AATATTTCCATGATTTGGCACCATAAAG
1120285 ACCTT
259 ACCTT
1120290 CTTCTCATTG
Statistics
Matches: 216, Mismatches: 40, Indels: 15
0.80 0.15 0.06
Matches are distributed among these distances:
314 2 0.01
315 4 0.02
316 172 0.80
317 7 0.03
318 2 0.01
319 29 0.13
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (317 bp):
TTTCCACCATTTTCCTTAAAATCAAAGTTCATCCCTAAATAAGACAAACATGGATTCTTGTGATA
ATATCCATTTTTAACATGATTGGGCAACAAAAACACATTCTCCCCATTAGGATACATGATATTAA
CACTTTGGTCTTATGAGAAAACCTTTTCTTTTCACCATTTTCCTTAGAATCAAAGATCATCCCTC
AAATAAGACAAACTTGGACTCTAGAAGAAAATATCAATATTTCCATGATTTGGCACCATAAAGAC
CTTGTCCTTATTGAGATACATGACATTGACACTTTGGTTTCATAGGAAAGACTCTTC
Found at i:1120592 original size:129 final size:129
Alignment explanation
Indices: 1120358--1120594 Score: 314
Period size: 129 Copynumber: 1.8 Consensus size: 129
1120348 CACCATTTTC
* * * *
1120358 CTTAGAATGAAAGTTTATCCCTCAAATGAGATAAACTTGGATTCTCATAATAATCTCCAATCTTT
1 CTTAGAATCAAAGTTTATCCCCCAAAGGAGAAAAACTTGGATTCTCATAATAATCTCCAATCTTT
* * *** * *
1120423 TTGTCATTTTGTAGTGTAAACATGTTCTCCTCATCGGGATACACACTATTAATGTTTTCATTTG
66 TTGTCATTTGGCACCATAAACATGTTCTACTCATCAGGATACACACTATTAATGTTTTCATTTG
*
1120487 CTTAGAATCAAAGTTTATCCCCCAAAGGAGAAAAACTTGGATTCTCATAATAATCTCCATTCTTT
1 CTTAGAATCAAAGTTTATCCCCCAAAGGAGAAAAACTTGGATTCTCATAATAATCTCCAATCTTT
* * * *
1120552 TCT-TGATTTGGCACCATAAAGATGTTCTACTTATTAGGATACA
66 T-TGTCATTTGGCACCATAAACATGTTCTACTCATCAGGATACA
1120595 TGATACGGAT
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
129 90 0.99
130 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (129 bp):
CTTAGAATCAAAGTTTATCCCCCAAAGGAGAAAAACTTGGATTCTCATAATAATCTCCAATCTTT
TTGTCATTTGGCACCATAAACATGTTCTACTCATCAGGATACACACTATTAATGTTTTCATTTG
Found at i:1120816 original size:159 final size:158
Alignment explanation
Indices: 1120487--1121533 Score: 551
Period size: 159 Copynumber: 6.6 Consensus size: 158
1120477 TTTTCATTTG
* * ** * * *
1120487 CTTAGAATCAAAGTTTATCCCCCAAAGGAGAAAAACTTGGATTCTCATAATAATCTCCATTCTTT
1 CTTAGAAT-AAAGGTCATCCCTTAAATGAGACAAACTTGGATTCTCATAATAATCTCCATTCATT
* * * *
1120552 TCTTGATTTGGCACCATAAAGATGTTCTACTTATTAGGATACATGATACGGATGCTTTGGTTTAG
65 TCATGATTTGGAACCATAAACATGTTCTACTTATTAGGATACATGATACGAATGCTTTGGTTTAG
*
1120617 CAAGAAAAGCTTTTGTTTCCACCATTTTC
130 CAAGAAAAGCTTTTGTGTCCACCATTTTC
* * *
1120646 CTTAGAATAAAGGTTCATCCC-TATAATGTGACGAACTTGGATTCTCATAATAATCTCTATTCAT
1 CTTAGAATAAAGG-TCATCCCTTA-AATGAGACAAACTTGGATTCTCATAATAATCTCCATTCAT
* * * ** *
1120710 TTCATGATTTGGAACCATAAACACAT-TTC-CCTTATTGGGGTACATGAT-TTAATGCTTTGTTT
64 TTCATGATTTGGAACCAT-AA-ACATGTTCTACTTATTAGGATACATGATACGAATGCTTTGGTT
** * *
1120772 TTTCAAGAAAAGCTTTCT-TGTCCTCCATTTTG
127 TAGCAAGAAAAGCTTT-TGTGTCCACCATTTTC
***
1120804 CTTAGAATTAAAGGTCATCCCTTAAATGAGACAAAAAGGGATTCTCATAATAATCAT-CATTC-T
1 CTTAGAA-TAAAGGTCATCCCTTAAATGAGACAAACTTGGATTCTCATAATAATC-TCCATTCAT
* * * * * * * * * **
1120867 TTGCTTGATTGGGCATCAAAAACATGTTCTCCTCATTATGATACATCATATTAATGCTTTGGTTT
64 TT-CATGATTTGGAACCATAAACATGTTCTACTTATTAGGATACATGATACGAATGCTTTGGTTT
* * * * * *
1120932 CGCAAGTAAACCTTTTCTTTCCACCATTTTT
128 AGCAAGAAAAGCTTTTGTGTCCACCATTTTC
* * * * * * *
1120963 CTTAGAATCAATGTTCAGCCCTCAAGTGAGACAAACTTGGATTCT-AGAAGTAA-CATCAAATAT
1 CTTAGAAT-AAAGGTCATCCCTTAAATGAGACAAACTTGGATTCTCATAA-TAATC-TC-CAT-T
* * * * ** * *
1121026 C-TTT-GTGATTTAGCACCATAAAGACATTCT-CTTCATTAGGATACATGATA-TAGATGCTTTC
61 CATTTCATGATTTGGAACCATAAACATGTTCTACTT-ATTAGGATACATGATACGA-ATGCTTTG
* * * * * *
1121087 GTTTTGTAAGAGAAGCTTTTCTTTCCATCATTTTAC
124 GTTTAGCAAGAAAAGCTTTTGTGTCCACCATTTT-C
* * * * * * *
1121123 C-TAGAATGAAAGTTTATCCCTCAAATAAGACAAATTTGGATTCTCATAATAATCTCCAATCTTT
1 CTTAGAAT-AAAGGTCATCCCTTAAATGAGACAAACTTGGATTCTCATAATAATCTCCATTCATT
** * * * * * * *
1121187 TTGTGATTTGGTAGCATAAACACT-TTC-ATCTCATTGGGATACCT-ATTATTG-ATGCATTGGT
65 TCATGATTTGGAACCATAAACA-TGTTCTA-CTTATTAGGATACATGA-TA-CGAATGCTTTGGT
* * * *
1121248 TTTGCAAGAAAATCATTT-T-TCCACCATTTTTG
126 TTAGCAAGAAAAGCTTTTGTGTCCACCA-TTTTC
* * * * * ** *** ** * *
1121280 CTTAGAATTAAAGTTCATCCGTCAAATAAGAGAAACTTAAATTCTTGCAATAGCCTCCTTTTATT
1 CTTAGAA-TAAAGGTCATCCCTTAAATGAGACAAACTTGGATTCTCATAATAATCTCCATTCA--
** * * * * *
1121345 TTTTTTTGATTTGGCACCATAAAGATGTTCTACTCATTAGGATACATGATATTGACA--CTTTAG
63 -TTTCATGATTTGGAACCATAAACATGTTCTACTTATTAGGATACATGATA-CGA-ATGCTTTGG
*
1121408 TTTCA-CAAGAAAAGC-TTTGCTTTCCACCATTTTC
125 TTT-AGCAAGAAAAGCTTTTG-TGTCCACCATTTTC
* ** * * * * * *
1121442 CTTAGAATTAAAGTTTTTCCCTCAAATAATAC-AACTTGGATTCTTATTATAATCTCCATTCTTT
1 CTTAGAA-TAAAGGTCATCCCTTAAATGAGACAAACTTGGATTCTCATAATAATCTCCATTCATT
* * *
1121506 TCATGATTTGGTACCATAACCAAGTTCT
65 TCATGATTTGGAACCATAAACATGTTCT
1121534 CCTCATAGGG
Statistics
Matches: 691, Mismatches: 151, Indels: 93
0.74 0.16 0.10
Matches are distributed among these distances:
156 4 0.01
157 17 0.02
158 199 0.29
159 326 0.47
160 18 0.03
161 85 0.12
162 34 0.05
163 8 0.01
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (158 bp):
CTTAGAATAAAGGTCATCCCTTAAATGAGACAAACTTGGATTCTCATAATAATCTCCATTCATTT
CATGATTTGGAACCATAAACATGTTCTACTTATTAGGATACATGATACGAATGCTTTGGTTTAGC
AAGAAAAGCTTTTGTGTCCACCATTTTC
Found at i:1121073 original size:317 final size:318
Alignment explanation
Indices: 1120525--1121186 Score: 743
Period size: 317 Copynumber: 2.1 Consensus size: 318
1120515 AGAAAAACTT
* * * * *
1120525 GGATTCTCATAATAATCTCCATTCTTTTCTTGATTTGGCACCATAAAGATGTTCTACTTATTAGG
1 GGATTCTCATAATAATCTCCATTCTTTGCTTGATTGGGCACCAAAAACATGTTCTACTCATTAGG
* * * *
1120590 ATACATGATACGGATGCTTTGGTTTAGCAAGAAAAGCTTTTGTTTCCACCATTTTCCTTAGAATA
66 ATACATCATACGAATGCTTTGGTTTAGCAAGAAAACCTTTTCTTTCCACCATTTTCCTTAGAATA
* * * * *
1120655 AAGGTTCATCCCTATAATGTGACGAACTTGGATTCTCATAATAATCTCTATTCATTTCATGATTT
131 AAGGTTCAGCCCTATAATGAGACAAACTTGGATTCTCAGAATAATCTCAATTCATTTCATGATTT
* * * * *
1120720 GGAACCATAAACACATTTCCCTTATTGGGGTACATGATTTA-ATGCTTT-GTTTTTTCAAGAAAA
196 AGAACCATAAACACATTTCCCTTATTAGGATACATGATATAGATGCTTTCGTTTTGT-AAGAAAA
* * * * *
1120783 GC-TTTCTTGTCC-TCCATTTTGCTTAGAATTAAAGGTCATCCCTTAAATGAGACAAAAAG
260 GCTTTTCTT-TCCAT-CATTTTACCTAGAATGAAAGGTCATCCCTCAAATAAGACAAAAAG
* * *
1120842 GGATTCTCATAATAATCAT-CATTCTTTGCTTGATTGGGCATCAAAAACATGTTCTCCTCATTAT
1 GGATTCTCATAATAATC-TCCATTCTTTGCTTGATTGGGCACCAAAAACATGTTCTACTCATTAG
** * * *
1120906 GATACATCATATTAATGCTTTGGTTTCGCAAGTAAACCTTTTCTTTCCACCATTTTTCTTAGAAT
65 GATACATCATACGAATGCTTTGGTTTAGCAAGAAAACCTTTTCTTTCCACCATTTTCCTTAGAAT
* * * *
1120971 CAATGTTCAGCCCTCA-AGTGAGACAAACTTGGATTCT-AGAAGTAA-CATCAAATATC-TTT-G
130 AAAGGTTCAGCCCT-ATAATGAGACAAACTTGGATTCTCAGAA-TAATC-TC-AAT-TCATTTCA
* * *
1121031 TGATTTAGCACCATAAAGACA-TTCTCTTCATTAGGATACATGATATAGATGCTTTCGTTTTGTA
190 TGATTTAGAACCATAAACACATTTCCCTT-ATTAGGATACATGATATAGATGCTTTCGTTTTGTA
* * * ***
1121095 AGAGAAGCTTTTCTTTCCATCATTTTACCTAGAATGAAAGTTTATCCCTCAAATAAGACAAATTT
254 AGAAAAGCTTTTCTTTCCATCATTTTACCTAGAATGAAAGGTCATCCCTCAAATAAGACAAAAAG
*
1121160 GGATTCTCATAATAATCTCCAATCTTT
1 GGATTCTCATAATAATCTCCATTCTTT
1121187 TTGTGATTTG
Statistics
Matches: 287, Mismatches: 46, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
316 10 0.03
317 178 0.62
318 84 0.29
319 15 0.05
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (318 bp):
GGATTCTCATAATAATCTCCATTCTTTGCTTGATTGGGCACCAAAAACATGTTCTACTCATTAGG
ATACATCATACGAATGCTTTGGTTTAGCAAGAAAACCTTTTCTTTCCACCATTTTCCTTAGAATA
AAGGTTCAGCCCTATAATGAGACAAACTTGGATTCTCAGAATAATCTCAATTCATTTCATGATTT
AGAACCATAAACACATTTCCCTTATTAGGATACATGATATAGATGCTTTCGTTTTGTAAGAAAAG
CTTTTCTTTCCATCATTTTACCTAGAATGAAAGGTCATCCCTCAAATAAGACAAAAAG
Found at i:1121228 original size:764 final size:764
Alignment explanation
Indices: 1119824--1121208 Score: 1771
Period size: 764 Copynumber: 1.8 Consensus size: 764
1119814 CATCTCATTT
** * * * * * * *
1119824 GGATACATGATATTGTTGCTTTGGTTTTGCTAGGAAAGCTTTTCTTTTCACCATTTTCCTTATAG
1 GGATACATGATACGGATGCTTTGGTTTAGCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAA
* * *
1119889 TGAAAGTTCATCCCTCAAATAAGACAAACTTGGACTCTAGTAGTAATTTCATCTTTTCATGATTT
66 TGAAAGTTCATCCCTCAAATAAGACAAACTTGGACTCTAGTAATAATCTCATCATTTCATGATTT
* ** * * *
1119954 GGCACCATAAGGACCTTGTCCTTATTGAGATACATGACATTGACACTTTGGTTTCATAGGAAAGA
131 GGAACCATAAACACATTGTCCTTATTGAGATACATGACATTAACACTTTGGTTTCATAGAAAAGA
* * *
1120019 CTCTTCTTTCCACCATTTTCCTTAAAATCAAAGTTCATCCCTTAAATGAGACAAACATGGATTCT
196 CTCTTCTTTCCACCATTTTCCTTAAAATCAAAGGTCATCCCTTAAATGAGACAAAAAGGGATTCT
** * * *
1120084 TGTTATAATCTCCATTTTTAACCTGTTTGGGCAACAAAAACATGTTCTCCCCATTAGGATACATG
261 CATAATAATCTCCATTTTTAACCTGATTGGGCAACAAAAACATGTTCTCCCCATTAGGATACATC
* *
1120149 ATATTAACACTTTGGTCTTATGAGAAAACCTTTTCTTTTCACCATTTTCCTTAGAATCAATGATC
326 ATATTAACACTTTGGTCTTACGAGAAAACCTTTTCTTTCCACCATTTTCCTTAGAATCAATGATC
* * * * * *
1120214 ATCCTTTAAATGCGACAAACTTGGATTCTAGAAGAAAATATCAAATATTTCCATGATTTGGCACC
391 AGCCCTCAAATGAGACAAACTTGGATTCTAGAAGAAAACATCAAATATTTCCATGATTTAGCACC
* * *
1120279 ATAAAGACCTTCTTCTCATTGGGACATATGATATAAATGCTTTTTGTTCCTAAGAAAAGCTTTTC
456 ATAAAGACATTCTTCTCATTAGGACACATGATATAAATGCTTTTTGTTCCTAAGAAAAGCTTTTC
* *
1120344 CTTCCACCATTTTCCTTAGAATGAAAGTTTATCCCTCAAATGAGATAAACTTGGATTCTCATAAT
521 CTTCCACCATTTTCCTTAGAATGAAAGTTTATCCCTCAAATAAGACAAACTTGGATTCTCATAAT
* **
1120409 AATCTCCAATCTTTTTGTCATTTTGTAGTGTAAACATGTTCTCCTCATCGGGATACACACTATTA
586 AATCTCCAATCTTTTTGTCATTTGGTAGCATAAACATGTTCTCCTCATCGGGATACACACTATTA
1120474 ATGTTTTCATTTGCTTAGAATCAAAGTTTATCCCCCAAAGGAGAAAAACTTGGATTCTCATAATA
651 ATGTTTTCATTTGCTTAGAATCAAAGTTTATCCCCCAAAGGAGAAAAACTTGGATTCTCATAATA
1120539 ATCTCCATTCTTTTCTTGATTTGGCACCATAAAGATGTTCTACTTATTA
716 ATCTCCATTCTTTTCTTGATTTGGCACCATAAAGATGTTCTACTTATTA
*
1120588 GGATACATGATACGGATGCTTTGGTTTAGCAAGAAAAGCTTTTGTTTCCACCATTTTCCTTAGAA
1 GGATACATGATACGGATGCTTTGGTTTAGCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAA
** * *
1120653 T-AAAGGTTCATCCCT-ATAATGTGACGAACTTGGATTCTCA-TAATAATCTCTATTCATTTCAT
66 TGAAA-GTTCATCCCTCA-AATAAGACAAACTTGGACTCT-AGTAATAATCTC-A-TCATTTCAT
* * * ** *
1120715 GATTTGGAACCATAAACACATT-TCCCTTATTGGGGTACATGA-TTTAATGCTTTGTTTTTTCA-
126 GATTTGGAACCATAAACACATTGT-CCTTATTGAGATACATGACATTAACACTTTG--GTTTCAT
* * * *
1120777 AGAAAAG-CT-TTCTTGTCCTCCATTTTGCTTAGAATTAAAGGTCATCCCTTAAATGAGACAAAA
188 AGAAAAGACTCTTCTT-TCCACCATTTTCCTTAAAATCAAAGGTCATCCCTTAAATGAGACAAAA
* * * *
1120840 AGGGATTCTCATAATAATCAT-CATTCTTT-GCTTGATTGGGCATCAAAAACATGTTCTCCTCAT
252 AGGGATTCTCATAATAATC-TCCATT-TTTAACCTGATTGGGCAACAAAAACATGTTCTCCCCAT
* ** * *
1120903 TATGATACATCATATTAATGCTTTGGT-TT-CGCAAGTAAACCTTTTCTTTCCACCATTTTTCTT
315 TAGGATACATCATATTAACACTTTGGTCTTACG--AGAAAACCTTTTCTTTCCACCATTTTCCTT
* * *
1120966 AGAATCAATGTTCAGCCCTCAAGTGAGACAAACTTGGATTCTAGAAG-TAACATCAAATATCTT-
378 AGAATCAATGATCAGCCCTCAAATGAGACAAACTTGGATTCTAGAAGAAAACATCAAATAT-TTC
** * *
1121029 TGTGATTTAGCACCATAAAGACATTC-TCTTCATTAGGATACATGATATAGATGCTTTCGTT-TT
442 CATGATTTAGCACCATAAAGACATTCTTC-TCATTAGGACACATGATATAAATGCTTT--TTGTT
* * * *
1121092 -GTAAGAGAAGCTTTTCTTTCCATCATTTTACC-TAGAATGAAAGTTTATCCCTCAAATAAGACA
504 CCTAAGAAAAGCTTTTCCTTCCACCATTTT-CCTTAGAATGAAAGTTTATCCCTCAAATAAGACA
* *
1121155 AATTTGGATTCTCATAATAATCTCCAATCTTTTTGTGATTTGGTAGCATAAACA
568 AACTTGGATTCTCATAATAATCTCCAATCTTTTTGTCATTTGGTAGCATAAACA
1121209 CTTTCATCTC
Statistics
Matches: 524, Mismatches: 79, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
763 7 0.01
764 258 0.49
765 200 0.38
766 54 0.10
767 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (764 bp):
GGATACATGATACGGATGCTTTGGTTTAGCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAA
TGAAAGTTCATCCCTCAAATAAGACAAACTTGGACTCTAGTAATAATCTCATCATTTCATGATTT
GGAACCATAAACACATTGTCCTTATTGAGATACATGACATTAACACTTTGGTTTCATAGAAAAGA
CTCTTCTTTCCACCATTTTCCTTAAAATCAAAGGTCATCCCTTAAATGAGACAAAAAGGGATTCT
CATAATAATCTCCATTTTTAACCTGATTGGGCAACAAAAACATGTTCTCCCCATTAGGATACATC
ATATTAACACTTTGGTCTTACGAGAAAACCTTTTCTTTCCACCATTTTCCTTAGAATCAATGATC
AGCCCTCAAATGAGACAAACTTGGATTCTAGAAGAAAACATCAAATATTTCCATGATTTAGCACC
ATAAAGACATTCTTCTCATTAGGACACATGATATAAATGCTTTTTGTTCCTAAGAAAAGCTTTTC
CTTCCACCATTTTCCTTAGAATGAAAGTTTATCCCTCAAATAAGACAAACTTGGATTCTCATAAT
AATCTCCAATCTTTTTGTCATTTGGTAGCATAAACATGTTCTCCTCATCGGGATACACACTATTA
ATGTTTTCATTTGCTTAGAATCAAAGTTTATCCCCCAAAGGAGAAAAACTTGGATTCTCATAATA
ATCTCCATTCTTTTCTTGATTTGGCACCATAAAGATGTTCTACTTATTA
Found at i:1121868 original size:51 final size:51
Alignment explanation
Indices: 1121809--1121910 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 51
1121799 GCCTTTATCT
* *
1121809 TTATTGATTACTGTTAGGATTGTGATT-ATGATTATCCTTGTTTAGTTAGGA
1 TTATTGATTACTGTTAGGACTGTGATTAAT-ATTATCCTTATTTAGTTAGGA
* *
1121860 TTATTGATTACTGTTAGGCCTGTGATTAATATTGTCCTTATTTAGTTAGGA
1 TTATTGATTACTGTTAGGACTGTGATTAATATTATCCTTATTTAGTTAGGA
1121911 CTCTACAGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 44 0.96
52 2 0.04
ACGTcount: A:0.24, C:0.08, G:0.21, T:0.48
Consensus pattern (51 bp):
TTATTGATTACTGTTAGGACTGTGATTAATATTATCCTTATTTAGTTAGGA
Found at i:1124006 original size:12 final size:12
Alignment explanation
Indices: 1123976--1124048 Score: 52
Period size: 12 Copynumber: 6.6 Consensus size: 12
1123966 AAGAGAAAGA
1123976 AGAGATAGGAGG
1 AGAGATAGGAGG
***
1123988 CTTGATAGGAGG
1 AGAGATAGGAGG
1124000 AGAGAT---AGG
1 AGAGATAGGAGG
*
1124009 AGAGAT---AGT
1 AGAGATAGGAGG
1124018 AGAGATAGGAGG
1 AGAGATAGGAGG
1124030 -GATGATAGGAGG
1 AGA-GATAGGAGG
1124042 AGAGATA
1 AGAGATA
1124049 ATAGAGAGAG
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
9 17 0.35
11 2 0.04
12 27 0.56
13 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.44, T:0.15
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:1124011 original size:9 final size:9
Alignment explanation
Indices: 1123997--1124028 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
1123987 GCTTGATAGG
1123997 AGGAGAGAT
1 AGGAGAGAT
1124006 AGGAGAGAT
1 AGGAGAGAT
*
1124015 AGTAGAGAT
1 AGGAGAGAT
1124024 AGGAG
1 AGGAG
1124029 GGATGATAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:1124026 original size:42 final size:42
Alignment explanation
Indices: 1123967--1124048 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
1123957 TAGCCCTCAA
*
1123967 AGAGAAAGAAGAGATAGGAGGCTTGATAGGAGGAGAGATAGG
1 AGAGAAAGAAGAGATAGGAGGCATGATAGGAGGAGAGATAGG
* * *
1124009 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATA
1 AGAGAAAGAAGAGATAGGAGGCATGATAGGAGGAGAGATA
1124049 ATAGAGAGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.43, C:0.01, G:0.43, T:0.13
Consensus pattern (42 bp):
AGAGAAAGAAGAGATAGGAGGCATGATAGGAGGAGAGATAGG
Found at i:1124043 original size:33 final size:33
Alignment explanation
Indices: 1124006--1124076 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
1123996 GAGGAGAGAT
* * *
1124006 AGGAGAGATAGTAGAGATAGGAGGGATGATAGG
1 AGGAGAGATAATAGAGAGAGGAGGGATGACAGG
*
1124039 AGGAGAGATAATAGAGAGAGGATGGATGACAGG
1 AGGAGAGATAATAGAGAGAGGAGGGATGACAGG
1124072 AGGAG
1 AGGAG
1124077 GAGAGAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.41, C:0.01, G:0.45, T:0.13
Consensus pattern (33 bp):
AGGAGAGATAATAGAGAGAGGAGGGATGACAGG
Found at i:1128971 original size:28 final size:28
Alignment explanation
Indices: 1128926--1128991 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
1128916 TTGTTCCCTC
1128926 CTTGTTGATTTCCCTTCCCATGATATTT
1 CTTGTTGATTTCCCTTCCCATGATATTT
**
1128954 CTTGTTGATTTCGTTTCCCATGATATTT
1 CTTGTTGATTTCCCTTCCCATGATATTT
1128982 CTTGTTGATT
1 CTTGTTGATT
1128992 GTGCTTCGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.53
Consensus pattern (28 bp):
CTTGTTGATTTCCCTTCCCATGATATTT
Found at i:1134771 original size:21 final size:21
Alignment explanation
Indices: 1134739--1134798 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
1134729 CTTCTTCTCT
1134739 TCTCCTCCTATCATCCCT-TC
1 TCTCCTCCTATCATCCCTATC
** * *
1134759 TCTTCCTGTTATCTTTCCTATC
1 TC-TCCTCCTATCATCCCTATC
1134781 TCTCCTCCTATCATCCCT
1 TCTCCTCCTATCATCCCT
1134799 CCTATCTCTA
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 2 0.07
21 24 0.80
22 4 0.13
ACGTcount: A:0.10, C:0.43, G:0.02, T:0.45
Consensus pattern (21 bp):
TCTCCTCCTATCATCCCTATC
Found at i:1134785 original size:42 final size:38
Alignment explanation
Indices: 1134739--1134876 Score: 142
Period size: 42 Copynumber: 3.6 Consensus size: 38
1134729 CTTCTTCTCT
*
1134739 TCTCCTCCTATCATCCCTTCTCTTCCTGTTATCTTTCCTATC
1 TCTCCTCCTATCATCCC-TC-CTTCC--TTATCTCTCCTATC
*
1134781 TCTCCTCCTATCAT--C-CC-TCC-TATCTCTACTATC
1 TCTCCTCCTATCATCCCTCCTTCCTTATCTCTCCTATC
1134814 TCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATC
1 TCTCCTCCTATCATCCCTCCT-TC-CT--TATCTCTCCTATC
*
1134856 TCTCCTCTTATCATCCCTCCT
1 TCTCCTCCTATCATCCCTCCT
1134877 ATCTCTTTTT
Statistics
Matches: 83, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
33 25 0.30
35 1 0.01
36 5 0.06
37 1 0.01
38 3 0.04
39 1 0.01
40 1 0.01
42 46 0.55
ACGTcount: A:0.12, C:0.44, G:0.01, T:0.43
Consensus pattern (38 bp):
TCTCCTCCTATCATCCCTCCTTCCTTATCTCTCCTATC
Found at i:1134786 original size:9 final size:9
Alignment explanation
Indices: 1134768--1134861 Score: 65
Period size: 9 Copynumber: 11.1 Consensus size: 9
1134758 CTCTTCCTGT
*
1134768 TATCTTTCC
1 TATCTCTCC
1134777 TATCTCTCC
1 TATCTCTCC
* *
1134786 T-CCTAT-C
1 TATCTCTCC
*
1134793 -ATCCCTCC
1 TATCTCTCC
*
1134801 TATCTCTAC
1 TATCTCTCC
1134810 TATCTCTCC
1 TATCTCTCC
* *
1134819 T-CCTAT-C
1 TATCTCTCC
*
1134826 -ATCCCTCC
1 TATCTCTCC
*
1134834 TATCTCTAC
1 TATCTCTCC
1134843 TATCTCTCC
1 TATCTCTCC
1134852 TATCTCTCC
1 TATCTCTCC
1134861 T
1 T
1134862 CTTATCATCC
Statistics
Matches: 62, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
7 6 0.10
8 8 0.13
9 48 0.77
ACGTcount: A:0.14, C:0.44, G:0.00, T:0.43
Consensus pattern (9 bp):
TATCTCTCC
Found at i:1134813 original size:33 final size:33
Alignment explanation
Indices: 1134776--1134852 Score: 154
Period size: 33 Copynumber: 2.3 Consensus size: 33
1134766 GTTATCTTTC
1134776 CTATCTCTCCTCCTATCATCCCTCCTATCTCTA
1 CTATCTCTCCTCCTATCATCCCTCCTATCTCTA
1134809 CTATCTCTCCTCCTATCATCCCTCCTATCTCTA
1 CTATCTCTCCTCCTATCATCCCTCCTATCTCTA
1134842 CTATCTCTCCT
1 CTATCTCTCCT
1134853 ATCTCTCCTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.14, C:0.45, G:0.00, T:0.40
Consensus pattern (33 bp):
CTATCTCTCCTCCTATCATCCCTCCTATCTCTA
Found at i:1134891 original size:42 final size:42
Alignment explanation
Indices: 1134774--1134882 Score: 148
Period size: 42 Copynumber: 2.5 Consensus size: 42
1134764 CTGTTATCTT
*
1134774 TCCTATC-TCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCC
1 TCCTATCATC-CCTCCTATC-T--CTACTATCTCTACTATCTCTCC
*
1134819 TCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCTCTCC
1 TCCTATCATCCCTCCTATCTCTACTATCTCTACTATCTCTCC
*
1134861 TCTTATCATCCCTCCTATCTCT
1 TCCTATCATCCCTCCTATCTCT
1134883 TTTTTCTCTT
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
42 41 0.68
44 1 0.02
45 16 0.27
46 2 0.03
ACGTcount: A:0.14, C:0.45, G:0.00, T:0.41
Consensus pattern (42 bp):
TCCTATCATCCCTCCTATCTCTACTATCTCTACTATCTCTCC
Found at i:1134891 original size:75 final size:75
Alignment explanation
Indices: 1134739--1134882 Score: 220
Period size: 75 Copynumber: 1.9 Consensus size: 75
1134729 CTTCTTCTCT
** *
1134739 TCTCCTCCTATCATCCCTTCTCTTCCTGTTATCTTTCCTATCTCTCCTCCTATCATCCCTCCTAT
1 TCTCCTCCTATCATCCCTTCTCTTCCTACTATCTCTCCTATCTCTCCTCCTATCATCCCTCCTAT
1134804 CTCTACTATC
66 CTCTACTATC
*
1134814 TCTCCTCCTATCATCCC-TC-CTATCTCTACTATCTCTCCTATCTCTCCTCTTATCATCCCTCCT
1 TCTCCTCCTATCATCCCTTCTCT-TC-CTACTATCTCTCCTATCTCTCCTCCTATCATCCCTCCT
1134877 ATCTCT
64 ATCTCT
1134883 TTTTTCTCTT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
73 2 0.03
74 4 0.06
75 57 0.90
ACGTcount: A:0.12, C:0.44, G:0.01, T:0.43
Consensus pattern (75 bp):
TCTCCTCCTATCATCCCTTCTCTTCCTACTATCTCTCCTATCTCTCCTCCTATCATCCCTCCTAT
CTCTACTATC
Found at i:1161222 original size:18 final size:18
Alignment explanation
Indices: 1161201--1161235 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1161191 CCTCCTCCTG
*
1161201 TTATCCCTCCTCTCTCTA
1 TTATCCCTCCTATCTCTA
*
1161219 TTATCTCTCCTATCTCT
1 TTATCCCTCCTATCTCT
1161236 CCTCCTATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.40, G:0.00, T:0.49
Consensus pattern (18 bp):
TTATCCCTCCTATCTCTA
Found at i:1161232 original size:9 final size:9
Alignment explanation
Indices: 1161220--1161277 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
1161210 CTCTCTCTAT
1161220 TATCTCTCC
1 TATCTCTCC
1161229 TATCTCTCC
1 TATCTCTCC
* *
1161238 T-CCTAT-C
1 TATCTCTCC
*
1161245 -ATCCCTCC
1 TATCTCTCC
* *
1161253 TATCTTTAC
1 TATCTCTCC
1161262 TATCTCTCC
1 TATCTCTCC
1161271 TATCTCT
1 TATCTCT
1161278 TCTCCTATCA
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
7 3 0.08
8 4 0.11
9 29 0.81
ACGTcount: A:0.14, C:0.41, G:0.00, T:0.45
Consensus pattern (9 bp):
TATCTCTCC
Found at i:1161240 original size:12 final size:11
Alignment explanation
Indices: 1161225--1161299 Score: 50
Period size: 12 Copynumber: 6.8 Consensus size: 11
1161215 TCTATTATCT
1161225 CTCCTATCTCTC
1 CTCCTATCTC-C
1161237 CTCCTATCATCC
1 CTCCTATC-TCC
1161249 CTCCTATCT--
1 CTCCTATCTCC
* *
1161258 TTACTATCT--
1 CTCCTATCTCC
*
1161267 CTCCTATCTCTT
1 CTCCTATCTC-C
1161279 CTCCTATCATCC
1 CTCCTATC-TCC
*
1161291 GTCCTATCT
1 CTCCTATCT
1161300 TTTCTTTCTC
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
9 14 0.27
11 2 0.04
12 32 0.62
13 4 0.08
ACGTcount: A:0.13, C:0.43, G:0.01, T:0.43
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:1161300 original size:42 final size:42
Alignment explanation
Indices: 1161192--1161310 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 42
1161182 TTCTTCTCTC
* * * * *
1161192 CTCCTCCTGTTATCCCTCCTCTCTCTATTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTTTACTATCTCTCCTATCT
1161234 CTCCTCCTATCATCCCTCCTATCTTTACTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTTTACTATCTCTCCTATCT
* * * *
1161276 CTTCTCCTATCATCCGTCCTATCTTTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTATCTTTACTATCTCT
1161311 TTGAGGGCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.11, C:0.41, G:0.02, T:0.46
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTTTACTATCTCTCCTATCT
Found at i:1161304 original size:24 final size:23
Alignment explanation
Indices: 1161211--1161304 Score: 81
Period size: 24 Copynumber: 4.1 Consensus size: 23
1161201 TTATCCCTCC
*
1161211 TCTCTCTATTATCTCTCCTATCTCT
1 TCTC-CTATCATC-CTCCTATCTCT
*
1161236 CCTCCTATCATCCCTCCTA--TCT
1 TCTCCTATCAT-CCTCCTATCTCT
*
1161258 T-TACTATC-T-CTCCTATCTCT
1 TCTCCTATCATCCTCCTATCTCT
*
1161278 TCTCCTATCATCCGTCCTATCTTT
1 TCTCCTATCATCC-TCCTATCTCT
1161302 TCT
1 TCT
1161305 TTCTCTTTGA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
18 6 0.11
20 5 0.09
21 12 0.21
22 4 0.07
23 1 0.02
24 24 0.43
25 4 0.07
ACGTcount: A:0.13, C:0.39, G:0.01, T:0.47
Consensus pattern (23 bp):
TCTCCTATCATCCTCCTATCTCT
Found at i:1164131 original size:50 final size:51
Alignment explanation
Indices: 1164070--1164184 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 51
1164060 TAAACAATAC
*
1164070 ATGTATCGATACATTCT-ATTTTTTACCCAGATGTATCGATACATTTTTCA
1 ATGTATCGATACATTATGATTTTTTACCCAGATGTATCGATACATTTTTCA
* * *
1164120 ATGTATTGATACATTATGTTTTTTTACCCAGATGTATTGATACATTTTTCA
1 ATGTATCGATACATTATGATTTTTTACCCAGATGTATCGATACATTTTTCA
1164171 ATGTATCGATACAT
1 ATGTATCGATACAT
1164185 CTAGTTAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
50 15 0.25
51 44 0.75
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (51 bp):
ATGTATCGATACATTATGATTTTTTACCCAGATGTATCGATACATTTTTCA
Found at i:1170398 original size:23 final size:23
Alignment explanation
Indices: 1170313--1170398 Score: 81
Period size: 23 Copynumber: 3.9 Consensus size: 23
1170303 TGTCCAACCT
*
1170313 ATTTTTTTGCCCTTTTTTTTT--
1 ATTTTTTTGCCATTTTTTTTTAA
* ** *
1170334 A-TTTTTTACCA-ACTTTTTAAA
1 ATTTTTTTGCCATTTTTTTTTAA
* *
1170355 ATTTTTTTGCTAGTTTTTTTTAA
1 ATTTTTTTGCCATTTTTTTTTAA
1170378 ATTTTTTTGCCATTTTTTTTT
1 ATTTTTTTGCCATTTTTTTTT
1170399 TTTGAAATGA
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
19 5 0.10
20 8 0.16
21 2 0.04
22 8 0.16
23 26 0.53
ACGTcount: A:0.16, C:0.10, G:0.05, T:0.69
Consensus pattern (23 bp):
ATTTTTTTGCCATTTTTTTTTAA
Found at i:1172733 original size:19 final size:20
Alignment explanation
Indices: 1172687--1172737 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1172677 CTGCCAGTTT
*
1172687 CATGTATCGATACAATTAAG
1 CATGTATCGATACAATGAAG
**
1172707 TGTGTATCGATACAATGAA-
1 CATGTATCGATACAATGAAG
1172726 CATGTATCGATA
1 CATGTATCGATA
1172738 TAGTGTATCA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATGAAG
Found at i:1181495 original size:13 final size:13
Alignment explanation
Indices: 1181477--1181501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1181467 ACAATGAACA
1181477 TGTATCGATACAG
1 TGTATCGATACAG
1181490 TGTATCGATACA
1 TGTATCGATACA
1181502 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1181501 original size:32 final size:33
Alignment explanation
Indices: 1181457--1181521 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
1181447 ACAATTGAGT
*
1181457 GTGTATCAATACAATG-A-ACATGTATCGATACA
1 GTGTATCAATACAAAGCATA-ATGTATCGATACA
*
1181489 GTGTATCGATACAAAGCATAATGTATCGATACA
1 GTGTATCAATACAAAGCATAATGTATCGATACA
1181522 TCTGGATGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (33 bp):
GTGTATCAATACAAAGCATAATGTATCGATACA
Found at i:1183260 original size:97 final size:97
Alignment explanation
Indices: 1183087--1183298 Score: 244
Period size: 97 Copynumber: 2.2 Consensus size: 97
1183077 TTGAAAAATT
* ** * * * * *
1183087 GGGTTGGAGTATCCCCTATGATGATAATTTAGGCAAAAATAAGATTTGAATCTTGCCAAGTTTAA
1 GGGTTGGAGTATCCCCGACAATGATAATTTAAGCAAAAATAAGATTTAAACCTAGACAAGTTTAA
*
1183152 ATACGGAGTTGGAGTATCCACTCAAAAGAATG
66 AAACGGAGTTGGAGTATCCACTCAAAAGAATG
* * *
1183184 GGGTTTGAGTATCCCCGACAATGATAATTTAAGCAAAAATAAGATTTAAACCTAGATAATTTTAA
1 GGGTTGGAGTATCCCCGACAATGATAATTTAAGCAAAAATAAGATTTAAACCTAGACAAGTTTAA
* * * ** * *
1183249 AAATGGGGTTGGTGTATCTTCTCAGAGGAATG
66 AAACGGAGTTGGAGTATCCACTCAAAAGAATG
*
1183281 GGGTTGGAGTTTCCCCGA
1 GGGTTGGAGTATCCCCGA
1183299 TAAATAAAAT
Statistics
Matches: 94, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
97 94 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (97 bp):
GGGTTGGAGTATCCCCGACAATGATAATTTAAGCAAAAATAAGATTTAAACCTAGACAAGTTTAA
AAACGGAGTTGGAGTATCCACTCAAAAGAATG
Found at i:1190081 original size:20 final size:19
Alignment explanation
Indices: 1190056--1190131 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
1190046 AAAACCCAAA
1190056 ATGTATCGATACAATGAGT
1 ATGTATCGATACAATGAGT
* * *
1190075 GATGTATCAAAACATTGTAAGT
1 -ATGTATCGATACAATG--AGT
* * *
1190097 ATGTATCGATACATTCACTT
1 ATGTATCGATACAATGA-GT
1190117 ATGTATCGATACAAT
1 ATGTATCGATACAAT
1190132 TTTTCCCGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 1 0.02
20 28 0.62
21 13 0.29
22 3 0.07
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (19 bp):
ATGTATCGATACAATGAGT
Found at i:1191348 original size:56 final size:59
Alignment explanation
Indices: 1191263--1191391 Score: 151
Period size: 56 Copynumber: 2.2 Consensus size: 59
1191253 CATCGGCTTG
* * * *
1191263 TGTGGGCTTTGAAAGGGTACCATTGACTTGT-GGGA-TTTGAAAA-GGTACCATTGACT
1 TGTGGGCTTTGAAAGGCTACCACTAACTTGTAGGGACTTTGAAAATGGTACCACTGACT
* *
1191319 TGTGGGCTTTGAATA-GCTACCACTAACTTGTATGGACTTTGAAAATGGTGCCACTGACT
1 TGTGGGCTTTGAA-AGGCTACCACTAACTTGTAGGGACTTTGAAAATGGTACCACTGACT
1191378 TG-GGGACTTTGAAA
1 TGTGGG-CTTTGAAA
1191392 AAGATGCCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
56 26 0.42
57 4 0.06
58 12 0.19
59 20 0.32
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.32
Consensus pattern (59 bp):
TGTGGGCTTTGAAAGGCTACCACTAACTTGTAGGGACTTTGAAAATGGTACCACTGACT
Found at i:1191479 original size:28 final size:28
Alignment explanation
Indices: 1191263--1191478 Score: 184
Period size: 29 Copynumber: 7.5 Consensus size: 28
1191253 CATCGGCTTG
*
1191263 TGTGGGCTTTGAAAGGGTACCATTGACT
1 TGTGGGCTTTGAAAAGGTACCATTGACT
*
1191291 TGTGGGATTTGAAAAGGTACCATTGACT
1 TGTGGGCTTTGAAAAGGTACCATTGACT
* * * *
1191319 TGTGGGCTTTGAATAGCTACCACTAACT
1 TGTGGGCTTTGAAAAGGTACCATTGACT
* * *
1191347 TGTATGGACTTTGAAAATGGTGCCACTGACT
1 TG--TGGGCTTTGAAAA-GGTACCATTGACT
* *
1191378 TG-GGGACTTTGAAAAAGATGCCATTGACT
1 TGTGGG-CTTTG-AAAAGGTACCATTGACT
* * *
1191407 TG-GAGGCTTTGGAAAAGGTGCCACTAACT
1 TGTG-GGCTTT-GAAAAGGTACCATTGACT
* *
1191436 TGGGGGTTTTGAAAAGGGTACCATTGACT
1 TGTGGGCTTTGAAAA-GGTACCATTGACT
* *
1191465 TATAGGCTTTGAAA
1 TGTGGGCTTTGAAA
1191479 GGGGTTTGGT
Statistics
Matches: 153, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
28 58 0.38
29 64 0.42
30 19 0.12
31 12 0.08
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTACCATTGACT
Found at i:1192095 original size:13 final size:12
Alignment explanation
Indices: 1192077--1192147 Score: 54
Period size: 13 Copynumber: 5.5 Consensus size: 12
1192067 GATATAAGGG
1192077 TCTTGACATAAGT
1 TCTTGACA-AAGT
1192090 TCTTGACAAAGT
1 TCTTGACAAAGT
* *
1192102 T-TCTAACAAACAT
1 TCT-TGACAAA-GT
*
1192115 TCTCGACAAAAGT
1 TCTTGAC-AAAGT
1192128 TCTTGACAAAAGTT
1 TCTTGAC-AAAG-T
1192142 TCTTGA
1 TCTTGA
1192148 TAACAATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
11 1 0.02
12 11 0.23
13 24 0.51
14 11 0.23
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (12 bp):
TCTTGACAAAGT
Found at i:1198269 original size:55 final size:55
Alignment explanation
Indices: 1198193--1198302 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
1198183 TGCTTAGCTA
1198193 GTCCACAATGTTGTATTCACTATGCTTGATGAACTTGAAAAACTCTGTTGCTTCT
1 GTCCACAATGTTGTATTCACTATGCTTGATGAACTTGAAAAACTCTGTTGCTTCT
1198248 GTCCACAATGTTGTATTCACTATGCTTGATGAACTTGAAAAACTCTGTTGCTTCT
1 GTCCACAATGTTGTATTCACTATGCTTGATGAACTTGAAAAACTCTGTTGCTTCT
1198303 CTTTCACTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (55 bp):
GTCCACAATGTTGTATTCACTATGCTTGATGAACTTGAAAAACTCTGTTGCTTCT
Found at i:1200066 original size:8 final size:8
Alignment explanation
Indices: 1200034--1200082 Score: 55
Period size: 8 Copynumber: 5.9 Consensus size: 8
1200024 AAGTGGAGAG
1200034 GAAAAGAAA
1 GAAAA-AAA
1200043 GAAAAAAA
1 GAAAAAAA
*
1200051 GGAAAAAA
1 GAAAAAAA
1200059 GAAAAAAA
1 GAAAAAAA
1200067 -ACTAAAAAA
1 GA--AAAAAA
1200076 GAAAAAA
1 GAAAAAA
1200083 TAGGTTAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
7 1 0.03
8 22 0.63
9 11 0.31
10 1 0.03
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (8 bp):
GAAAAAAA
Found at i:1200066 original size:17 final size:17
Alignment explanation
Indices: 1200040--1200082 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
1200030 AGAGGAAAAG
*
1200040 AAAG-AAAAAAAGGAAA
1 AAAGAAAAAAAACGAAA
*
1200056 AAAGAAAAAAAACTAAA
1 AAAGAAAAAAAACGAAA
1200073 AAAGAAAAAA
1 AAAGAAAAAA
1200083 TAGGTTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (17 bp):
AAAGAAAAAAAACGAAA
Found at i:1205169 original size:20 final size:20
Alignment explanation
Indices: 1205146--1205221 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
1205136 TACATTTCTC
*
1205146 AATGTATCGATATATTGAAA
1 AATGTATCGATATATTAAAA
* *
1205166 AATGTATCGATATATTCATA
1 AATGTATCGATATATTAAAA
* *
1205186 CATGTATTGATATATTAAAA
1 AATGTATCGATATATTAAAA
*
1205206 AATGTACCGATATATT
1 AATGTATCGATATATT
1205222 TGGGTAAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (20 bp):
AATGTATCGATATATTAAAA
Found at i:1206139 original size:29 final size:30
Alignment explanation
Indices: 1206106--1206191 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 30
1206096 TCGGAAAAAG
*
1206106 GTGCCACCAACTTGGGTGAGCTTTGACT-C
1 GTGCCACCAACTTGTGTGAGCTTTGACTAC
* * *
1206135 GTGCCGCTAA-TT-TGTGCAGGCTTTGACTAGG
1 GTGCCACCAACTTGTGTG-A-GCTTTGACTA-C
*
1206166 GTGCCACCAACTTGTGTGGGCTTTGA
1 GTGCCACCAACTTGTGTGAGCTTTGA
1206192 AAAGGGTTGC
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
27 3 0.07
28 3 0.07
29 17 0.39
31 15 0.34
32 2 0.05
33 4 0.09
ACGTcount: A:0.16, C:0.23, G:0.30, T:0.30
Consensus pattern (30 bp):
GTGCCACCAACTTGTGTGAGCTTTGACTAC
Found at i:1206181 original size:31 final size:28
Alignment explanation
Indices: 1206105--1206191 Score: 68
Period size: 31 Copynumber: 2.9 Consensus size: 28
1206095 CTCGGAAAAA
1206105 GGTGCCACCAACTTGGGTGA-GCTTTGACT
1 GGTGCCACCAACTT--GTGAGGCTTTGACT
* * * *
1206134 CGTGCCGCTAATTTGTGCAGGCTTTGACT
1 GGTGCCACCAACTTGTG-AGGCTTTGACT
*
1206163 AGGGTGCCACCAACTTGTGTGGGCTTTGA
1 --GGTGCCACCAACTTGTG-AGGCTTTGA
1206192 AAAGGGTTGC
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
27 3 0.07
28 1 0.02
29 19 0.43
31 21 0.48
ACGTcount: A:0.16, C:0.23, G:0.31, T:0.30
Consensus pattern (28 bp):
GGTGCCACCAACTTGTGAGGCTTTGACT
Found at i:1206245 original size:28 final size:28
Alignment explanation
Indices: 1206180--1206784 Score: 681
Period size: 28 Copynumber: 21.6 Consensus size: 28
1206170 CACCAACTTG
1206180 TGTGGGCTTTGAAAAGGGTTGCCACTGACT
1 TGTGGGCTTTGAAAA-GG-TGCCACTGACT
* * *
1206210 TATGGGCTTTGAAAAGGTGCCATTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
1206238 TGTTGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
1206266 TGTGGGCTTTGAGAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * * *
1206294 TGTGGGCTTTGAGAATGAGCCATTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
1206322 TGAGGGCTTTG-AAAGGATACCACTGAC-
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
1206349 T-TGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
1206376 TGTGGGCTTTGAAAAAGGTGCCACTAACT
1 TGTGGGCTTTG-AAAAGGTGCCACTGACT
* * *
1206405 TATGGGCTTTGAAAAGTTGCCACTTACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
1206433 TGTGGGCTTTG-AAAGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
1206460 TGTGGGCTTTGAAAATGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * * * *
1206488 TATGGGTTTTGAGATGGAGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
** *
1206516 TACGGGCTTTG-AAAGGATACCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* * *
1206544 TGTGGGCTTTGAGAAGGTGCCATTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
1206572 TGTAGGCTTTG-AAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
1206600 TGTGGGCTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACT
*
1206629 TGTGGGCTTTGAAAAGGTTCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
1206657 TGTGGGCTTTG-AAAGGATACCACTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
1206685 TGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
1206713 TATGGGCTTT-TAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
1206741 TGTGGGCTATGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
1206769 TGTGGGCTTTGAAAAG
1 TGTGGGCTTTGAAAAG
1206785 AGGTCGTATT
Statistics
Matches: 491, Mismatches: 67, Indels: 36
0.83 0.11 0.06
Matches are distributed among these distances:
26 23 0.05
27 52 0.11
28 328 0.67
29 67 0.14
30 21 0.04
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:1206812 original size:14 final size:13
Alignment explanation
Indices: 1206793--1206866 Score: 62
Period size: 13 Copynumber: 5.6 Consensus size: 13
1206783 AGAGGTCGTA
1206793 TTGACAAAAATTTC
1 TTGAC-AAAATTTC
*
1206807 TTGACAAAGTTTC
1 TTGACAAAATTTC
*
1206820 TT-ACGAACA-TTC
1 TTGAC-AAAATTTC
* *
1206832 TCGACAAAAGTTC
1 TTGACAAAATTTC
*
1206845 TTGACGATAATTTC
1 TTGAC-AAAATTTC
1206859 TTGACAAA
1 TTGACAAA
1206867 TGGCAAATTG
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
12 9 0.19
13 22 0.47
14 16 0.34
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (13 bp):
TTGACAAAATTTC
Found at i:1208096 original size:18 final size:19
Alignment explanation
Indices: 1208073--1208115 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1208063 GACCTCTCCC
1208073 TTTTTGG-TGTTGTTTTTT
1 TTTTTGGTTGTTGTTTTTT
*
1208091 TTTTTGGTTTTTGTTTTTT
1 TTTTTGGTTGTTGTTTTTT
1208110 TCTTTT
1 T-TTTT
1208116 TTTTCTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 11 0.50
20 4 0.18
ACGTcount: A:0.00, C:0.02, G:0.16, T:0.81
Consensus pattern (19 bp):
TTTTTGGTTGTTGTTTTTT
Found at i:1208101 original size:24 final size:24
Alignment explanation
Indices: 1208074--1208119 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
1208064 ACCTCTCCCT
1208074 TTTTGGTGTTGTTT-TTTTTTTTGG
1 TTTTGGT-TTGTTTCTTTTTTTTGG
* *
1208098 TTTTTGTTTTTTTCTTTTTTTT
1 TTTTGGTTTGTTTCTTTTTTTT
1208120 CTTTTTGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (24 bp):
TTTTGGTTTGTTTCTTTTTTTTGG
Found at i:1208124 original size:23 final size:22
Alignment explanation
Indices: 1208080--1208126 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
1208070 CCCTTTTTGG
*
1208080 TGTTGTTTTTTTTTTTGGTTTT
1 TGTTGTTTTTTTTTTTGCTTTT
* *
1208102 TGTTTTTTTCTTTTTTTTCTTTT
1 TGTTGTTTT-TTTTTTTGCTTTT
1208125 TG
1 TG
1208127 AGAAGGATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.83
Consensus pattern (22 bp):
TGTTGTTTTTTTTTTTGCTTTT
Found at i:1214119 original size:15 final size:15
Alignment explanation
Indices: 1214080--1214124 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
1214070 GTGTATCGAC
*
1214080 GATTTTGTGGTGGGT
1 GATTTTGTGGTGGAT
* **
1214095 AATTAGGTGGTGGAT
1 GATTTTGTGGTGGAT
1214110 GATTTTGTGGTGGAT
1 GATTTTGTGGTGGAT
1214125 TTGGCAAAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (15 bp):
GATTTTGTGGTGGAT
Found at i:1232797 original size:32 final size:32
Alignment explanation
Indices: 1232723--1232798 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
1232713 GCTTGACTTT
* * *
1232723 TTCTCTTTTTTTTTGTTTTATTTTGATTTTACT
1 TTCTCTTTTTTCTTG-TTTATTTTGATTCTACC
* *
1232756 TTCTGTTTTTTCTTG-TTGTTTTGATTGCTACC
1 TTCTCTTTTTTCTTGTTTATTTTGATT-CTACC
1232788 TTCTCTTTTTT
1 TTCTCTTTTTT
1232799 TTCGTTCCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
31 10 0.28
32 13 0.36
33 13 0.36
ACGTcount: A:0.07, C:0.13, G:0.09, T:0.71
Consensus pattern (32 bp):
TTCTCTTTTTTCTTGTTTATTTTGATTCTACC
Found at i:1232798 original size:33 final size:31
Alignment explanation
Indices: 1232723--1232800 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 31
1232713 GCTTGACTTT
*
1232723 TTCTCTTTTTTTTTGTTTTATTTTGATTTTAC
1 TTCTCTTTTTTTTTG-TTTATTTTGATTCTAC
*
1232755 TT-TCTGTTTTTTCTTG-TTGTTTTGATTGCTACC
1 TTCTCT-TTTTTT-TTGTTTATTTTGATT-CTA-C
1232788 TTCTCTTTTTTTT
1 TTCTCTTTTTTTT
1232801 CGTTCCTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
31 13 0.33
32 11 0.28
33 12 0.31
34 3 0.08
ACGTcount: A:0.06, C:0.13, G:0.09, T:0.72
Consensus pattern (31 bp):
TTCTCTTTTTTTTTGTTTATTTTGATTCTAC
Found at i:1232888 original size:26 final size:24
Alignment explanation
Indices: 1232859--1232907 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
1232849 TTTGAGCTAC
1232859 TATTACTTCTTAATTTGCTATTGTTT
1 TATTACTTCTTAATTT-CT-TTGTTT
* *
1232885 TATTGCTTCTTCATTTCTTTGTT
1 TATTACTTCTTAATTTCTTTGTT
1232908 GCAACCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 2 0.10
26 14 0.67
ACGTcount: A:0.14, C:0.14, G:0.08, T:0.63
Consensus pattern (24 bp):
TATTACTTCTTAATTTCTTTGTTT
Found at i:1233312 original size:12 final size:12
Alignment explanation
Indices: 1233294--1233327 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
1233284 CCTCCATGCT
1233294 CATGCATGAAAG
1 CATGCATGAAAG
*
1233306 TATGCATGAAAG
1 CATGCATGAAAG
1233318 CATGCATGAA
1 CATGCATGAA
1233328 GTGTATCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (12 bp):
CATGCATGAAAG
Found at i:1239276 original size:21 final size:21
Alignment explanation
Indices: 1239251--1239298 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
1239241 GCTACTACTA
1239251 GTTGCTGGAGCTATTTGCTTG
1 GTTGCTGGAGCTATTTGCTTG
* *
1239272 GTTGCTGGAGCTGTTTGTTTG
1 GTTGCTGGAGCTATTTGCTTG
1239293 GTTGCT
1 GTTGCT
1239299 TGCTGTTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.06, C:0.12, G:0.35, T:0.46
Consensus pattern (21 bp):
GTTGCTGGAGCTATTTGCTTG
Found at i:1243752 original size:81 final size:83
Alignment explanation
Indices: 1243636--1243790 Score: 244
Period size: 81 Copynumber: 1.9 Consensus size: 83
1243626 GGGGGCATCG
*
1243636 ACCACACATTCCCCAATCATATCCCTTTTTGCTCAACCACTAGATGGTA-CTAATGCATCACAAA
1 ACCACACATTCCCCAATCATATCCCTTTTTCCTCAACCACTAGATGGTATC-AATGCATCACAAA
1243700 GCTTGGTTTTTGTGGGTCA
65 GCTTGGTTTTTGTGGGTCA
* * *
1243719 ACCACATATT-CCCAATCATAT-CCTTTTTCCTCAACCCCTAGATGGTATCGATGCATCACAAAG
1 ACCACACATTCCCCAATCATATCCCTTTTTCCTCAACCACTAGATGGTATCAATGCATCACAAAG
1243782 CTTGGTTTT
66 CTTGGTTTT
1243791 CTCGTAGCCA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
81 46 0.69
82 12 0.18
83 9 0.13
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.32
Consensus pattern (83 bp):
ACCACACATTCCCCAATCATATCCCTTTTTCCTCAACCACTAGATGGTATCAATGCATCACAAAG
CTTGGTTTTTGTGGGTCA
Found at i:1244568 original size:46 final size:46
Alignment explanation
Indices: 1244444--1244781 Score: 218
Period size: 46 Copynumber: 7.4 Consensus size: 46
1244434 TCCCACCCTA
* * * * * *
1244444 GTCAAACCC-TTTCATTCGCATTTGACTACATCAGTTATCACCCTG
1 GTCAAACCCTTTTCATTCTCATTTAACTATATCGGTTACCACCTTG
** * ** * * * *
1244489 GTCAAACTTTTTTCATTATTGTTTGATTGTATCGGTTAGCACCTTG
1 GTCAAACCCTTTTCATTCTCATTTAACTATATCGGTTACCACCTTG
* * * * * *
1244535 GTCAAACCCTTTTAAATCTCATTTAACTATATCGATTATCACCCTA
1 GTCAAACCCTTTTCATTCTCATTTAACTATATCGGTTACCACCTTG
* * * * * *
1244581 ATCAAACCCTTTTCGTTCTCATTTGAA-TGTATCAGTTACCACCCTA
1 GTCAAACCCTTTTCATTCTCATTT-AACTATATCGGTTACCACCTTG
* * * * *
1244627 GTCAAACCCTTTTCATTTTCATTTGATTATATCGATTACCA-TTCTG
1 GTCAAACCCTTTTCATTCTCATTTAACTATATCGGTTACCACCT-TG
* * *
1244673 GTCAAACCATTTTCATTCTCATTTGACTATATTGGTTACCA-CTCTG
1 GTCAAACCCTTTTCATTCTCATTTAACTATATCGGTTACCACCT-TG
* * * ** * *
1244719 GTCAAACCTTTTTCATCCAT-ATTTGACTATATTAGTAATCACCTTG
1 GTCAAACCCTTTTCATTC-TCATTTAACTATATCGGTTACCACCTTG
*
1244765 GTCAAACTCTTTTCATT
1 GTCAAACCCTTTTCATT
1244782 TTCACTCGAC
Statistics
Matches: 229, Mismatches: 58, Indels: 11
0.77 0.19 0.04
Matches are distributed among these distances:
45 8 0.03
46 216 0.94
47 5 0.02
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (46 bp):
GTCAAACCCTTTTCATTCTCATTTAACTATATCGGTTACCACCTTG
Found at i:1244594 original size:92 final size:92
Alignment explanation
Indices: 1244416--1244750 Score: 280
Period size: 92 Copynumber: 3.7 Consensus size: 92
1244406 CTATTTGTTC
* * * *
1244416 TTGTTTGACTGTATCAGTTCCCACCCTAGTCAAACCC-TTTCATTCGCATTTGACTACATC-AGT
1 TTGTTTGAATGTATCAGTTACCACCCTAGTCAAACCCTTTTCATTCTCATTTGACTATATCGA-T
** **
1244479 TATCACCCTGGTCAAACTTTTTTCATTA
65 TATCACCCTAATCAAACCCTTTTCATTA
* * * * * * * *
1244507 TTGTTTGATTGTATCGGTTAGCACCTTGGTCAAACCCTTTTAAATCTCATTTAACTATATCGATT
1 TTGTTTGAATGTATCAGTTACCACCCTAGTCAAACCCTTTTCATTCTCATTTGACTATATCGATT
* *
1244572 ATCACCCTAATCAAACCCTTTTCGTTC
66 ATCACCCTAATCAAACCCTTTTCATTA
** * *
1244599 TCATTTGAATGTATCAGTTACCACCCTAGTCAAACCCTTTTCATTTTCATTTGATTATATCGATT
1 TTGTTTGAATGTATCAGTTACCACCCTAGTCAAACCCTTTTCATTCTCATTTGACTATATCGATT
* ** ** * *
1244664 ACCATTCTGGTCAAACCATTTTCATTC
66 ATCACCCTAATCAAACCCTTTTCATTA
** * * ** * * * *
1244691 TCATTTGACTATATTGGTTACCACTCTGGTCAAACCTTTTTCATCCAT-ATTTGACTATAT
1 TTGTTTGAATGTATCAGTTACCACCCTAGTCAAACCCTTTTCATTC-TCATTTGACTATAT
1244751 TAGTAATCAC
Statistics
Matches: 195, Mismatches: 46, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
91 31 0.16
92 162 0.83
93 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (92 bp):
TTGTTTGAATGTATCAGTTACCACCCTAGTCAAACCCTTTTCATTCTCATTTGACTATATCGATT
ATCACCCTAATCAAACCCTTTTCATTA
Found at i:1244724 original size:138 final size:138
Alignment explanation
Indices: 1244436--1244785 Score: 384
Period size: 138 Copynumber: 2.5 Consensus size: 138
1244426 GTATCAGTTC
* * *
1244436 CCACCCTAGTCAAACCC-TTTCATTCGCATTTGACTACATCAGTTATCACCCTGGTCAAACTTTT
1 CCACCCTAGTCAAACCCTTTTCATTCTCATTTGACTATATCAGTTATCACCCTGGTCAAACTCTT
* * * * *
1244500 TTCATTATT-GTTTGATTGTATCGGTTAGCACCTTGGTCAAACCCTTTTAAATCTCATTTAACTA
66 TTCATT-TTCATTTGATTATATCGATTACCACCTTGGTCAAACCATTTTAAATCTCATTTAACTA
1244564 TATCGATTA
130 TATCGATTA
* * * * * * * *
1244573 TCACCCTAATCAAACCCTTTTCGTTCTCATTTGAATGTATCAGTTACCACCCTAGTCAAACCCTT
1 CCACCCTAGTCAAACCCTTTTCATTCTCATTTGACTATATCAGTTATCACCCTGGTCAAACTCTT
* * * *
1244638 TTCATTTTCATTTGATTATATCGATTACCA-TTCTGGTCAAACCATTTTCATTCTCATTTGACTA
66 TTCATTTTCATTTGATTATATCGATTACCACCT-TGGTCAAACCATTTTAAATCTCATTTAACTA
* *
1244702 TATTGGTTA
130 TATCGATTA
* * * * * * *
1244711 CCACTCTGGTCAAACCTTTTTCATCCAT-ATTTGACTATATTAGTAATCACCTTGGTCAAACTCT
1 CCACCCTAGTCAAACCCTTTTCATTC-TCATTTGACTATATCAGTTATCACCCTGGTCAAACTCT
1244775 TTTCATTTTCA
65 TTTCATTTTCA
1244786 CTCGACGTGA
Statistics
Matches: 172, Mismatches: 37, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
137 18 0.10
138 153 0.89
139 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.40
Consensus pattern (138 bp):
CCACCCTAGTCAAACCCTTTTCATTCTCATTTGACTATATCAGTTATCACCCTGGTCAAACTCTT
TTCATTTTCATTTGATTATATCGATTACCACCTTGGTCAAACCATTTTAAATCTCATTTAACTAT
ATCGATTA
Found at i:1245052 original size:86 final size:84
Alignment explanation
Indices: 1244844--1245067 Score: 245
Period size: 85 Copynumber: 2.7 Consensus size: 84
1244834 ATAGGTTAAG
* * * * ** * *
1244844 TTTTTTGTCCTTTGTTGACTTACCGATTTAATCCCAATCAA-TTTTTCATCCTTTATCTACCTGT
1 TTTTTTATCCTTTGTTGACTTATCGGTTCAATCCCGGTCAACTTTTTTATCCTTTATCTACCTAT
*
1244908 CGACTTAGTCCCGAGTAAA
66 CGACTTAGTCCCGAGGAAA
* * * ** *
1244927 TCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTTGGTCAACCTTTTTTATCCTTT-GCTTACCT
1 TTTTTTATCCTTTGTTGACTTATCGGTTCAATCCCGGTCAA-CTTTTTTATCCTTTATC-TACCT
1244991 ATCGACTTAGTCCCGAGGAAA
64 ATCGACTTAGTCCCGAGGAAA
* * *
1245012 TATTTTTATCCTTTGTTGATTTATCGGTTCAATCCCGGTCAACATTTGTATCCTTT
1 T-TTTTTATCCTTTGTTGACTTATCGGTTCAATCCCGGTCAACTTTTTTATCCTTT
1245068 TTTACTTGTT
Statistics
Matches: 114, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
83 30 0.26
84 1 0.01
85 49 0.43
86 34 0.30
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (84 bp):
TTTTTTATCCTTTGTTGACTTATCGGTTCAATCCCGGTCAACTTTTTTATCCTTTATCTACCTAT
CGACTTAGTCCCGAGGAAA
Found at i:1246373 original size:166 final size:166
Alignment explanation
Indices: 1246181--1246552 Score: 414
Period size: 166 Copynumber: 2.2 Consensus size: 166
1246171 TTTTTTGAGA
* * * * * *
1246181 GGATTTTTGTCAATATAAAATTTTTAAAATTAATCAAATATTATTATTTAA-TCA-ACCTTAAAT
1 GGATTTTTCTCAGTTTAAAATTTTTAAAATTCATCAAATATCATTATTTAATTCATA--ATAAAT
* * *
1246244 CAATTTTAAAAAATTCCTTT-TACTTCATCAAATTATT-ATTTTTTCCTTGAAATTCC-TCGTTT
64 CAATTTTAAAAAATTCATTTAT-CTTCAT-AAATTATTCATTTTTCCCTTGAAATTCCTTCGTTA
* * * * *
1246306 TCGAAAAACTGAGTTTTTTCATTTCATAAAGGTTTTTTAGGG
127 CCGAAAAACTGAGTTTTCT-ATTCCATAAAAG-TTTTCAGGG
* *
1246348 GG-TTTTTCTCAGTTTGAAATTTTTAAAATTCATCAAATATCATTATTTAATTCATAATAAATTA
1 GGATTTTTCTCAGTTTAAAATTTTTAAAATTCATCAAATATCATTATTTAATTCATAATAAATCA
* * * * * * *
1246412 TTTTTTAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTCCCTTGAAATTCCTTTGTTACCGA
66 ATTTTAAAAAATTCATTTATCTTCATAAATTATTCATTTTTCCCTTGAAATTCCTTCGTTACCGA
* *
1246477 GAAACTGAGTTTTCTATTCCATAAAAGTTTTCGGGG
131 AAAACTGAGTTTTCTATTCCATAAAAGTTTTCAGGG
*
1246513 GGATTTTTCTCAGTTTAAAATTTTTAAAATTCATCTAATA
1 GGATTTTTCTCAGTTTAAAATTTTTAAAATTCATCAAATA
1246553 CTATCATTGA
Statistics
Matches: 172, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
165 14 0.08
166 131 0.76
167 26 0.15
168 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (166 bp):
GGATTTTTCTCAGTTTAAAATTTTTAAAATTCATCAAATATCATTATTTAATTCATAATAAATCA
ATTTTAAAAAATTCATTTATCTTCATAAATTATTCATTTTTCCCTTGAAATTCCTTCGTTACCGA
AAAACTGAGTTTTCTATTCCATAAAAGTTTTCAGGG
Found at i:1247078 original size:16 final size:16
Alignment explanation
Indices: 1247049--1247094 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
1247039 AAGTGGAGAG
*
1247049 GAAAAAAGAGAAAAAAA
1 GAAAAAA-AAAAAAAAA
1247066 GAAAAAAAAAAAAAAA
1 GAAAAAAAAAAAAAAA
1247082 GAAAAAGAAAAAA
1 GAAAAA-AAAAAA
1247095 TAAGCTATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAAAAAAAA
Found at i:1247094 original size:8 final size:8
Alignment explanation
Indices: 1247049--1247087 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
1247039 AAGTGGAGAG
1247049 GAAAAAAGA
1 GAAAAAA-A
1247058 GAAAAAAA
1 GAAAAAAA
1247066 GAAAAAAA
1 GAAAAAAA
*
1247074 AAAAAAAA
1 GAAAAAAA
1247082 GAAAAA
1 GAAAAA
1247088 GAAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:1248274 original size:142 final size:142
Alignment explanation
Indices: 1247980--1248275 Score: 339
Period size: 142 Copynumber: 2.1 Consensus size: 142
1247970 TTTTATCGTT
* * **
1247980 AAATAAAAATTAT-TATCTTAATTTTTCAAAATTTCTAATATTCGTATGGTTTTCTGTAGGGGTA
1 AAATAAAAATT-TGTATCTTAATTTTTCAAAATTTCTAATATTCCTAGGGTTTTCCATAGGGGTA
* * * * * * *
1248044 TAGAAATCTTCAAAATTTTTCATATCTATTCGGTTTTCTATTAAGGTATGAAATGAATTTTTTTA
65 TAGAAATCTTCAAAACTTTTCATATCCACTCAGTTTTCTATTAAGGTACGAAATGAACTCTTTTA
* *
1248109 GAAATTAAAAATT
130 GAAAATAAAAATC
*
1248122 AAATAAAAATTTGTATCTTAATTTTTCAAGATTTCTAATATTCCTAGGGTTTTCCATAGGGGTAT
1 AAATAAAAATTTGTATCTTAATTTTTCAAAATTTCTAATATTCCTAGGGTTTTCCATAGGGGTAT
* * * ** *
1248187 AGAAATTTTCAAAACTTTTCATATCCCCT-AGTTTTC-CTTCGGGTACGAAATG-GCTCTTTTAG
66 AGAAATCTTCAAAACTTTTCATATCCACTCAGTTTTCTATTAAGGTACGAAATGAACTCTTTTA-
1248249 GAAAATAATAAATC
130 GAAAATAA-AAATC
*
1248263 AATTAATAAATTT
1 AAATAA-AAATTT
1248276 TAATGTGTTA
Statistics
Matches: 129, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
139 6 0.05
140 19 0.15
141 16 0.12
142 88 0.68
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (142 bp):
AAATAAAAATTTGTATCTTAATTTTTCAAAATTTCTAATATTCCTAGGGTTTTCCATAGGGGTAT
AGAAATCTTCAAAACTTTTCATATCCACTCAGTTTTCTATTAAGGTACGAAATGAACTCTTTTAG
AAAATAAAAATC
Found at i:1249858 original size:29 final size:28
Alignment explanation
Indices: 1249815--1249919 Score: 142
Period size: 29 Copynumber: 3.8 Consensus size: 28
1249805 AAATTCTTGC
1249815 GTTTTAGTTGACTTTTAATTCTTTTTAGT
1 GTTTTAGTTGACTTTTAATTCTTTTT-GT
* *
1249844 ATTTTAGTTGACTTTTAATTATTTTTGT
1 GTTTTAGTTGACTTTTAATTCTTTTTGT
* *
1249872 GTTTTAGTTGAC-CTT-ATTCTTTTTTTT
1 GTTTTAGTTGACTTTTAATTC-TTTTTGT
1249899 GTTTTAGTTGACTTTTAATTC
1 GTTTTAGTTGACTTTTAATTC
1249920 CTTAGTTTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
26 3 0.05
27 20 0.30
28 15 0.23
29 28 0.42
ACGTcount: A:0.17, C:0.08, G:0.12, T:0.63
Consensus pattern (28 bp):
GTTTTAGTTGACTTTTAATTCTTTTTGT
Found at i:1251704 original size:159 final size:160
Alignment explanation
Indices: 1251513--1251922 Score: 388
Period size: 160 Copynumber: 2.6 Consensus size: 160
1251503 TTTAAGGGAT
* * * *
1251513 GAACTTTGATTATAAGGAAAATGATGATAAGAAAAGATTTTCTTATGAAACCAAAGCATCAATAT
1 GAACTTTGATTCTAAGGAAAATGGTCAAAAGAAAAGATTTTCTTATGAAACCAAAGCATCAATAT
* * * ** * * *
1251578 CATGTATCCTAATGAAAAAAACGTTTTTATTGAGCTAAATCATGAAAA-TATTGGAGATTATTAT
66 CATGTATCCTAATGAAAAAAACATGTATAAGGAGCCAAATCATGAAAACAAATGGAGATTATTAT
* * * *
1251642 GAAAATCTAAGTTTGTCTCATTTGAGAGAT
131 GAAAATCCAAATTTGTCTCACTTGAGAGAA
* * ** * *
1251672 GAA-TTTTAGTTCTAAAGG-AAATGGTCTAAAGAAAA-ACATTCATTGTGAAACCAAAGCTTCAA
1 GAACTTTGA-TTCT-AAGGAAAATGGTCAAAAGAAAAGATTTTC-TTATGAAACCAAAGCATCAA
* * * *
1251734 TACCATGTATCCCAAT-AAACAAAATATGTATAAGGTGCCAAATCATGAAAACAAATGGAGATTA
63 TATCATGTATCCTAATGAAA-AAAACATGTATAAGGAGCCAAATCATGAAAACAAATGGAGATTA
* *
1251798 TTATGAGAATCCAAATTTGTCTCACTTGAGGGAA
127 TTATGAAAATCCAAATTTGTCTCACTTGAGAGAA
* * * *
1251832 GAGCTTTGATTCTATGGAAAATGGTCAAAAGAAAAG-TTTT-TTCTACAAATCCAAA-CAATCAA
1 GAACTTTGATTCTAAGGAAAATGGTCAAAAGAAAAGATTTTCTTAT-GAAA-CCAAAGC-ATCAA
*
1251894 CATCATGTATCCTAATGAAGAAAAA-ATGT
63 TATCATGTATCCTAATGAA-AAAAACATGT
1251923 TGCCCAATAA
Statistics
Matches: 198, Mismatches: 40, Indels: 25
0.75 0.15 0.10
Matches are distributed among these distances:
158 14 0.07
159 81 0.41
160 92 0.46
161 10 0.05
162 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (160 bp):
GAACTTTGATTCTAAGGAAAATGGTCAAAAGAAAAGATTTTCTTATGAAACCAAAGCATCAATAT
CATGTATCCTAATGAAAAAAACATGTATAAGGAGCCAAATCATGAAAACAAATGGAGATTATTAT
GAAAATCCAAATTTGTCTCACTTGAGAGAA
Found at i:1252596 original size:159 final size:158
Alignment explanation
Indices: 1252223--1252858 Score: 454
Period size: 159 Copynumber: 4.0 Consensus size: 158
1252213 AATTATGAGC
* * * * * * *
1252223 AGAATGGAGATTATTATAAGAATCCAAATTTGTCTTATTTTAGG-GACGAACCTTGATTCTAAGG
1 AGAATGGAGATTAGTACAAGAATCCAAGTTTGGCTTA-TTTAGGAGA-TAAACTTGATTATAAGG
* *** * *
1252287 AAACT-ATTGGAAAGAAAAG-TTTTCTTTTGAAACCAAA-CAATCAATATCATGTATCCTAATAA
64 AAAATGA-TGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGC-ATCAATATCATGTA-CCCAATGA
* *
1252349 GGAGAATGTGTTTATGGT-GCCAAATC-TGGAAAA
126 GGAGAATGTGTTT-TTGTAGCCCAATCAT-GAAAA
* * * * * * * * *** *
1252382 A-AATGAAAATTATTGCGAGAATCTAAGTCT-GCTTCATTTA-AAGAATGAGTTTTGATTATATG
1 AGAATGGAGATTAGTACAAGAATCCAAGTTTGGCTT-ATTTAGGAG-AT-AAACTTGATTATAAG
* * * *
1252444 GTAAATAATGGGAAGAAAAGCTTTTCTTACAAAACCAAAGCATCAATATCATGTACCCAAATGAG
63 GAAAATGATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTACCC-AATGAG
* * *
1252509 GAGAACGTGTTTTTATCGCCCAATCA-GAAAA
127 GAGAATGTGTTTTTGTAGCCCAATCATGAAAA
* *
1252540 AGAATGGA-ATTAGTACAAGAATCCAAGTTTGTCTTATTTGAGG-GATAAAACATTGATTCTAAG
1 AGAATGGAGATTAGTACAAGAATCCAAGTTTGGCTTATTT-AGGAGAT-AAAC-TTGATTATAAG
* * ** * * *
1252603 GAAAATGATGGAAAGGAAAGTTTTTCTTGTGAAATCAAAGCTTCAATATCATGTTTCCCAATGAG
63 GAAAATGATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATG-TACCCAATGAG
* *
1252668 GAAAATGTGGTTTTTGTTGCCTC-ATCATG-AAA
127 GAGAATGT-GTTTTTGTAGCC-CAATCATGAAAA
* ** ** * * * *
1252700 AGAATGTAGATTTTTATGAGAATCCATGTTTGGCTTATTTAGGAGATGAACTCTGATTTTAAGAA
1 AGAATGGAGATTAGTACAAGAATCCAAGTTTGGCTTATTTAGGAGATAAACT-TGATTATAAGGA
* * * * * *
1252765 AAATGTTGGAAATAAAAGCTTTTCTTGCAAAACCAAAGCATCAATGTCGTGTATACCAATGAAGA
65 AAATGATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTA-CCCAATGAGGA
*
1252830 GAATGTGTTTTGGTAGCCCAATCATGAAA
129 GAATGTGTTTTTGTAGCCCAATCATGAAA
1252859 GTAAGATTAT
Statistics
Matches: 369, Mismatches: 83, Indels: 49
0.74 0.17 0.10
Matches are distributed among these distances:
157 8 0.02
158 83 0.22
159 146 0.40
160 102 0.28
161 30 0.08
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (158 bp):
AGAATGGAGATTAGTACAAGAATCCAAGTTTGGCTTATTTAGGAGATAAACTTGATTATAAGGAA
AATGATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGTACCCAATGAGGAGA
ATGTGTTTTTGTAGCCCAATCATGAAAA
Found at i:1254068 original size:19 final size:19
Alignment explanation
Indices: 1254020--1254076 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
1254010 ACTGTCAGTT
*
1254020 TCATGTATCGATACAATTA
1 TCATGTATCGATACAATGA
*
1254039 TGCATGCATCGATACAATGA
1 T-CATGTATCGATACAATGA
1254059 TCATGTATCGATACAATG
1 TCATGTATCGATACAATG
1254077 TATCGATACA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:1254079 original size:13 final size:13
Alignment explanation
Indices: 1254061--1254087 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1254051 TACAATGATC
1254061 ATGTATCGATACA
1 ATGTATCGATACA
1254074 ATGTATCGATACA
1 ATGTATCGATACA
1254087 A
1 A
1254088 AGCATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1256838 original size:51 final size:50
Alignment explanation
Indices: 1256782--1256934 Score: 135
Period size: 61 Copynumber: 2.8 Consensus size: 50
1256772 CTTCTGAAAT
*
1256782 AACAAGGTTGGAGTATCCCTGAGATGAAAATTTTAATATTTCAAAAATAAA
1 AACAAGGTTGGAGTATCCC-GAGATGAAAAATTTAATATTTCAAAAATAAA
* *
1256833 AACAAGAAATAATAGGGTTGGCGTTTTCCCGAGATGAAAAATTTAATATTTCAAAAATAAA
1 AAC--------A-A-GGTTGGAG-TATCCCGAGATGAAAAATTTAATATTTCAAAAATAAA
* * *
1256894 AATAGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTT
1 AACAAGGTTGGAGTAT-CCCGAGATGAAAAATTTAATATTT
1256935 TGGAAATAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
50 2 0.02
51 33 0.40
53 1 0.01
59 1 0.01
60 1 0.01
61 39 0.48
62 5 0.06
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (50 bp):
AACAAGGTTGGAGTATCCCGAGATGAAAAATTTAATATTTCAAAAATAAA
Found at i:1256942 original size:51 final size:51
Alignment explanation
Indices: 1256843--1256959 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
1256833 AACAAGAAAT
* * * *
1256843 AATAGGGTTGGCGTTTTCCCGAGATGAAAAATTTAATATTTCAAAAATAAA
1 AATAGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTCAAAAATAAA
***
1256894 AATAGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGGAAATAAA
1 AATAGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTCAAAAATAAA
1256945 AAT-GGGTTGGAGTAT
1 AATAGGGTTGGAGTAT
1256960 TCCTTCAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
50 12 0.20
51 47 0.80
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (51 bp):
AATAGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTCAAAAATAAA
Found at i:1257062 original size:79 final size:79
Alignment explanation
Indices: 1256897--1257222 Score: 331
Period size: 79 Copynumber: 4.2 Consensus size: 79
1256887 AAATAAAAAT
* * *
1256897 AGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGGAAATAAAAATGG-GTTGGAGTAT-
1 AGGGTTAGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAACGGAGTTGGAGTATC
* *
1256960 TCCTTCAAAAATAAT
66 T-CTTCGAAAATAAC
* * * ** *
1256975 GGGGTTAGAGTATCCCCAAGATAAAAAAATTAATATTTCAAAAATAAAAACGGAGTTAGAGTATC
1 AGGGTTAGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAACGGAGTTGGAGTATC
1257040 TCTTCGAAAATAAC
66 TCTTCGAAAATAAC
* * * *
1257054 AGGGTTAGAGTACCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAACGAAATTGGAGTATC
1 AGGGTTAGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAACGGAGTTGGAGTAT-
*
1257119 CCCTT-GAAAATAAC
65 CTCTTCGAAAATAAC
* * * * * * * *
1257133 GGGGTTGGAGTATCCTCGAGTTG-AAACTTTAATATTTTGAAAATAAAAATAGG-GTTGGAGTAA
1 AGGGTTAGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAA-CGGAGTTGGAGTAT
*
1257196 CT-TCTCAAAAATAAC
65 CTCT-TCGAAAATAAC
* *
1257211 AAGGTTGGAGTA
1 AGGGTTAGAGTA
1257223 CCCTTATGAT
Statistics
Matches: 206, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
76 1 0.00
77 2 0.01
78 96 0.47
79 102 0.50
80 5 0.02
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (79 bp):
AGGGTTAGAGTATCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAACGGAGTTGGAGTATC
TCTTCGAAAATAAC
Found at i:1257194 original size:157 final size:157
Alignment explanation
Indices: 1256897--1257225 Score: 378
Period size: 157 Copynumber: 2.1 Consensus size: 157
1256887 AAATAAAAAT
* * * ** *
1256897 AGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGGAAATAAAAATGGGTTGGAGTATTC
1 AGGGTTGGAGTACCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAACGAATTGGAGTATCC
* *
1256962 CTTCAAAAATAATGGGGTTAGAGTATCCCCAAGATAAAAAAATTAATATTTCAAAAATAAAAACG
66 CTTCAAAAATAACGGGGTTAGAGTATCCCCAAGATAAAAAAATTAATATTTCAAAAATAAAAAAG
* *
1257027 GAGTTAGAGTATC-TCTTCGAAAATAAC
131 GAGTTAGAGTAACTTC-TCAAAAATAAC
* *
1257054 AGGGTTAGAGTACCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAACGAAATTGGAGTATC
1 AGGGTTGGAGTACCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAACG-AATTGGAGTAT-
* * * * ** ** **
1257119 CCCTT-GAAAATAACGGGGTTGGAGTATCCTCGAG-TTGAAACTTTAATATTTTGAAAATAAAAA
64 CCCTTCAAAAATAACGGGGTTAGAGTATCCCCAAGATAAAAAAATTAATATTTCAAAAATAAAAA
*
1257182 TAGG-GTTGGAGTAACTTCTCAAAAATAAC
129 -AGGAGTTAGAGTAACTTCTCAAAAATAAC
*
1257211 AAGGTTGGAGTACCC
1 AGGGTTGGAGTACCC
1257226 TTATGATTAA
Statistics
Matches: 143, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
157 102 0.71
158 37 0.26
159 4 0.03
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.28
Consensus pattern (157 bp):
AGGGTTGGAGTACCCCCAAGATGAAAAATTTAATATTTTGAAAATAAAAACGAATTGGAGTATCC
CTTCAAAAATAACGGGGTTAGAGTATCCCCAAGATAAAAAAATTAATATTTCAAAAATAAAAAAG
GAGTTAGAGTAACTTCTCAAAAATAAC
Found at i:1260515 original size:17 final size:14
Alignment explanation
Indices: 1260483--1260511 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1260473 TGTAGGTATG
1260483 ATGGTGAATGAAAT
1 ATGGTGAATGAAAT
1260497 ATGGTGAATGAAAT
1 ATGGTGAATGAAAT
1260511 A
1 A
1260512 ATATAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (14 bp):
ATGGTGAATGAAAT
Found at i:1264385 original size:23 final size:24
Alignment explanation
Indices: 1264334--1264386 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
1264324 TGCCTTCACT
* * *
1264334 CTTTTTCATTTTTGTTTCTTTTGT
1 CTTTCTCATTTTTGTTGCTTTTGC
*
1264358 GTTTCTCATTTTTG-TGCTTTTGC
1 CTTTCTCATTTTTGTTGCTTTTGC
1264381 CTTTCT
1 CTTTCT
1264387 TCTTTTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.04, C:0.17, G:0.11, T:0.68
Consensus pattern (24 bp):
CTTTCTCATTTTTGTTGCTTTTGC
Found at i:1269425 original size:48 final size:49
Alignment explanation
Indices: 1269373--1269482 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 49
1269363 GAGTATCCCC
* ** *
1269373 TCGAAAATAAA-GGGGTTGGAGTATCTCCGAGATGAAAAATTTAATATT
1 TCGAAAATAAACAGGGTTAAAGTATCCCCGAGATGAAAAATTTAATATT
1269421 TCGAAAATAAAAACAGGGTTAAAGTATCCCCGAGATGAAAAATTTAATATT
1 TCGAAAAT--AAACAGGGTTAAAGTATCCCCGAGATGAAAAATTTAATATT
*
1269472 TCAAAAATAAA
1 TCGAAAATAAA
1269483 AATGAGATTG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
48 8 0.15
49 3 0.06
50 3 0.06
51 40 0.74
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.26
Consensus pattern (49 bp):
TCGAAAATAAACAGGGTTAAAGTATCCCCGAGATGAAAAATTTAATATT
Found at i:1269440 original size:130 final size:129
Alignment explanation
Indices: 1269306--1269581 Score: 374
Period size: 130 Copynumber: 2.1 Consensus size: 129
1269296 GAAAATAATG
* * ** * *
1269306 GGGTTGGAGTATCCTCGAGATGAAAATTTTAATATTTTGAAAATTAAAATGAGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAATGAGATTGGAGTATCC
*
1269371 CCTCGAAAATAAAGGGGTTGGAGTATCTCC-GAGATGAAAAATTTAATATTTCGAAAATAAAAAC
66 CCTCGAAAATAAAGGGGTTGGAGT-TC-CCTGAGATGAAAAATTTAATATTTCAAAAATAAAAAC
1269435 A
129 A
** *
1269436 GGGTTAAAGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAATGAGATTGGAGTATCT
1 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAATGAGATTGGAGTATCC
* * * *
1269501 CTTTGAAAATAATGGGGTTGGAGTTCCCTTGAGATGAAAATTTTAATATTTCAAAAATAAAAACA
66 CCTCGAAAATAAAGGGGTTGGAGTTCCC-TGAGATGAAAAATTTAATATTTCAAAAATAAAAACA
**
1269566 GGGCCGGAGTATCCCC
1 GGGTTGGAGTATCCCC
1269582 TTGAAAATAA
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
128 2 0.02
129 2 0.02
130 122 0.97
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (129 bp):
GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAATGAGATTGGAGTATCC
CCTCGAAAATAAAGGGGTTGGAGTTCCCTGAGATGAAAAATTTAATATTTCAAAAATAAAAACA
Found at i:1269451 original size:79 final size:78
Alignment explanation
Indices: 1269227--1269451 Score: 308
Period size: 79 Copynumber: 2.8 Consensus size: 78
1269217 TTTGAATATA
* * *
1269227 GGGTTGGAGTACCCTCGATGATGAAAATTTTAATATTTTGGAAATAAAAAGGGGTTAGAGTATCC
1 GGGTTGGAGTATCCTCGA-GATGAAAATTTTAATATTTTGAAAATAAAAAAGGGTTAGAGTATCC
* *
1269292 CATCGAAAATAATG
65 CCTCGAAAATAAAG
* * *
1269306 GGGTTGGAGTATCCTCGAGATGAAAATTTTAATATTTTGAAAATTAAAATGAGGTTGGAGTATCC
1 GGGTTGGAGTATCCTCGAGATGAAAATTTTAATATTTTGAAAATAAAAAAG-GGTTAGAGTATCC
1269371 CCTCGAAAATAAAG
65 CCTCGAAAATAAAG
* * *
1269385 GGGTTGGAGTAT-CTCCGAGATGAAAAATTTAATATTTCGAAAATAAAAACAGGGTTAAAGTATC
1 GGGTTGGAGTATCCT-CGAGATGAAAATTTTAATATTTTGAAAATAAAAA-AGGGTTAGAGTATC
1269449 CCC
64 CCC
1269452 GAGATGAAAA
Statistics
Matches: 130, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
78 32 0.25
79 97 0.75
80 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (78 bp):
GGGTTGGAGTATCCTCGAGATGAAAATTTTAATATTTTGAAAATAAAAAAGGGTTAGAGTATCCC
CTCGAAAATAAAG
Found at i:1269498 original size:51 final size:51
Alignment explanation
Indices: 1269388--1269499 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 51
1269378 AATAAAGGGG
* * *
1269388 TTGGAGTATCTCCGAGATGAAAAATTTAATATTTCGAAAATAAAAACAGGG
1 TTGGAGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAACAGGA
** *
1269439 TTAAAGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAA-TGAGA
1 TTGGAGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAACAG-GA
1269490 TTGGAGTATC
1 TTGGAGTATC
1269500 TCTTTGAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 1 0.02
51 51 0.98
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.29
Consensus pattern (51 bp):
TTGGAGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAACAGGA
Found at i:1269519 original size:79 final size:79
Alignment explanation
Indices: 1269443--1270169 Score: 681
Period size: 79 Copynumber: 9.2 Consensus size: 79
1269433 ACAGGGTTAA
* * * *
1269443 AGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAATGAGATTGGAGTATCTCTTTGAA
1 AGTATCCCCGAGATGAAAATTTTAATATTTCAAAAATAAAAATGAGGTTGGAGTATCCCCTTGAA
*
1269508 AATAATGGGGTTGG
66 AATAACGGGGTTGG
* * **
1269522 AGT-TCCCTTGAGATGAAAATTTTAATATTTCAAAAATAAAAA-CAGGGCCGGAGTATCCCCTTG
1 AGTATCCC-CGAGATGAAAATTTTAATATTTCAAAAATAAAAATGA-GGTTGGAGTATCCCCTTG
***
1269585 AAAATAATAAGGTTGG
64 AAAATAACGGGGTTGG
* * * * **
1269601 AGTATCCCCAAGATGAAAATTTTAATATTAT-AGAAATAAAAACG-GAGTTAGAGTA-CCCCTCA
1 AGTATCCCCGAGATGAAAATTTTAATATT-TCAAAAATAAAAATGAG-GTTGGAGTATCCCCTTG
* *
1269663 AAAATAACGAGGTTAG
64 AAAATAACGGGGTTGG
* * *
1269679 AGTATCCCCAAGATGAAAATTTTAATATTTCAAAAAT-AAAACGAGGTTGGAGTAT-CCGTTCGA
1 AGTATCCCCGAGATGAAAATTTTAATATTTCAAAAATAAAAATGAGGTTGGAGTATCCCCTT-GA
*
1269742 AAATAATGGGGTTGG
65 AAATAACGGGGTTGG
* * *
1269757 AGT-TCCCCTGAGATGAAAATTTTAATATTTCAAAAATAAAAATGAGATTTGAGTATCCCCTCGA
1 AGTATCCCC-GAGATGAAAATTTTAATATTTCAAAAATAAAAATGAGGTTGGAGTATCCCCTTGA
*
1269821 AAATAACGAGGTTGG
65 AAATAACGGGGTTGG
* *** * * * *
1269836 AGTATCCGCGAGATGAAAATTTTAATATTTTGGAAATAAAAACGAAGTTGGAGTATCTCC-TCAG
1 AGTATCCCCGAGATGAAAATTTTAATATTTCAAAAATAAAAATGAGGTTGGAGTATCCCCTTGA-
*
1269900 AAATAACAGGGTTGG
65 AAATAACGGGGTTGG
* * ** * **
1269915 AGTAT-CTCGAGATGAAAAATTTAATATTTTGAAAATAAAAA-CAGGGTTGGAGTAT-CTTTTCG
1 AGTATCCCCGAGATGAAAATTTTAATATTTCAAAAATAAAAATGA-GGTTGGAGTATCCCCTT-G
* *
1269977 AAATTAACGGGGTTAG
64 AAAATAACGGGGTTGG
* * * * * ** *
1269993 ATTACCCCCCAGATGAAAAATTTAATATTTCAAAAATAAAAGT-AGGGTTAAAGTATCCCCTAGA
1 AGTATCCCCGAGATGAAAATTTTAATATTTCAAAAATAAAAATGA-GGTTGGAGTATCCCCTTGA
* *
1270057 AAATAACGAGATTGG
65 AAATAACGGGGTTGG
* ** *
1270072 AATATCCCTAAGATGAAAATTTTAATATTTCAAAAATAAAAATGAGGTTGGAGTA-CCCCTTCGG
1 AGTATCCCCGAGATGAAAATTTTAATATTTCAAAAATAAAAATGAGGTTGGAGTATCCCCTT-GA
**
1270136 AAATAACAAGGTTGG
65 AAATAACGGGGTTGG
* *
1270151 AGTATCCCCGTGTTGAAAA
1 AGTATCCCCGAGATGAAAA
1270170 ATTCGATATT
Statistics
Matches: 529, Mismatches: 96, Indels: 46
0.79 0.14 0.07
Matches are distributed among these distances:
77 24 0.05
78 167 0.32
79 323 0.61
80 15 0.03
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (79 bp):
AGTATCCCCGAGATGAAAATTTTAATATTTCAAAAATAAAAATGAGGTTGGAGTATCCCCTTGAA
AATAACGGGGTTGG
Found at i:1269605 original size:209 final size:207
Alignment explanation
Indices: 1269234--1269659 Score: 520
Period size: 209 Copynumber: 2.0 Consensus size: 207
1269224 ATAGGGTTGG
* *** * *
1269234 AGTACCCTCGATGATGAAAATTTTAATATTTTGGAAATAAAAAGGGGTTAGAGTATCCCATCGAA
1 AGTACCC-CGA-GATGAAAAATTTAATATTTCAAAAATAAAAAGAGATTAGAGTATCCCATCGAA
** * * **
1269299 AATAATGGGGTTGGAGTATCCTCGAGATGAAAATTTTAATATTTTGAAAATTAAAATGAGGTTGG
64 AATAATGGGGTTGGAGTATCCTCGAGATGAAAATTTTAATATTTCAAAAATAAAAAAGAGGCCGG
* * * *
1269364 AGTATCCCCTCGAAAATAAAGGGGTTGGAGTATCTCCGAGATGAAAAATTTAATATT-TCGAAAA
129 AGTATCCCCTCGAAAATAAAGAGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTATAG-AAA
1269428 TAAAAACAGG-GTTAA
193 TAAAAAC-GGAGTTAA
* * * *
1269443 AGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAATGAGATTGGAGTATCTCTTTGAA
1 AGTA-CCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAA-GAGATTAGAGTATCCCATCGAA
*
1269508 AATAATGGGGTTGGAGT-TCCCTTGAGATGAAAATTTTAATATTTCAAAAATAAAAACAG-GGCC
64 AATAATGGGGTTGGAGTAT-CCTCGAGATGAAAATTTTAATATTTCAAAAATAAAAA-AGAGGCC
* *
1269571 GGAGTATCCCCTTGAAAATAATA-AGGTTGGAGTATCCCCAAGATGAAAATTTTAATATTATAGA
127 GGAGTATCCCCTCGAAAATAA-AGAGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTATAGA
*
1269635 AATAAAAACGGAGTTAG
191 AATAAAAACGGAGTTAA
1269652 AGTACCCC
1 AGTACCCC
1269660 TCAAAAATAA
Statistics
Matches: 186, Mismatches: 24, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
208 34 0.18
209 145 0.78
210 7 0.04
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (207 bp):
AGTACCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAAGAGATTAGAGTATCCCATCGAAAA
TAATGGGGTTGGAGTATCCTCGAGATGAAAATTTTAATATTTCAAAAATAAAAAAGAGGCCGGAG
TATCCCCTCGAAAATAAAGAGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTATAGAAATAA
AAACGGAGTTAA
Found at i:1269851 original size:157 final size:159
Alignment explanation
Indices: 1269443--1270169 Score: 737
Period size: 157 Copynumber: 4.6 Consensus size: 159
1269433 ACAGGGTTAA
* * * *
1269443 AGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAATGAGATTGGAGTATCTCTTTGAA
1 AGTATCCCCGAGATGAAAATTTTAATATTTCAAAAATAAAAATGAGATTGGAGTATCCCCTCGAA
* * * **
1269508 AATAATGGGGTTGGAGT-TCCCTTGAGATGAAAATTTTAATATTTCAAAAATAAAAAC-AGGGCC
66 AATAACGAGGTTGGAGTATCCC-CGAGATGAAAATTTTAATATTTCAAAAATAAAAACGAGGGTT
* *
1269571 GGAGTATCCCCTTGAAAATAATAAGGTTGG
130 GGAGTATCCCCTCGAAAATAACAAGGTTGG
* * * * *
1269601 AGTATCCCCAAGATGAAAATTTTAATATTAT-AGAAATAAAAACG-GAGTTAGAGTA-CCCCTCA
1 AGTATCCCCGAGATGAAAATTTTAATATT-TCAAAAATAAAAATGAGA-TTGGAGTATCCCCTCG
* *
1269663 AAAATAACGAGGTTAGAGTATCCCCAAGATGAAAATTTTAATATTTCAAAAAT-AAAACGA-GGT
64 AAAATAACGAGGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTCAAAAATAAAAACGAGGGT
** ***
1269726 TGGAGTATCCGTTCGAAAATAATGGGGTTGG
129 TGGAGTATCCCCTCGAAAATAACAAGGTTGG
*
1269757 AGT-TCCCCTGAGATGAAAATTTTAATATTTCAAAAATAAAAATGAGATTTGAGTATCCCCTCGA
1 AGTATCCCC-GAGATGAAAATTTTAATATTTCAAAAATAAAAATGAGATTGGAGTATCCCCTCGA
* *** *
1269821 AAATAACGAGGTTGGAGTATCCGCGAGATGAAAATTTTAATATTTTGGAAATAAAAACGA-AGTT
65 AAATAACGAGGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTCAAAAATAAAAACGAGGGTT
* *
1269885 GGAGTATCTCCTC-AGAAATAACAGGGTTGG
130 GGAGTATCCCCTCGA-AAATAACAAGGTTGG
* * ** * * ***
1269915 AGTAT-CTCGAGATGAAAAATTTAATATTTTGAAAATAAAAA-CAGGGTTGGAGTATCTTTTCGA
1 AGTATCCCCGAGATGAAAATTTTAATATTTCAAAAATAAAAATGA-GATTGGAGTATCCCCTCGA
* * * * * * *
1269978 AATTAACGGGGTTAGATTACCCCCCAGATGAAAAATTTAATATTTCAAAAAT-AAAA-GTAGGGT
65 AAATAACGAGGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTCAAAAATAAAAACG-AGGGT
** * * *
1270041 TAAAGTATCCCCTAGAAAATAACGAGATTGG
129 TGGAGTATCCCCTCGAAAATAACAAGGTTGG
* ** * *
1270072 AATATCCCTAAGATGAAAATTTTAATATTTCAAAAATAAAAATGAGGTTGGAGTA-CCCCTTCGG
1 AGTATCCCCGAGATGAAAATTTTAATATTTCAAAAATAAAAATGAGATTGGAGTATCCCC-TCGA
* * *
1270136 AAATAACAAGGTTGGAGTATCCCCGTGTTGAAAA
65 AAATAACGAGGTTGGAGTATCCCCGAGATGAAAA
1270170 ATTCGATATT
Statistics
Matches: 463, Mismatches: 88, Indels: 36
0.79 0.15 0.06
Matches are distributed among these distances:
155 7 0.02
156 78 0.17
157 219 0.47
158 156 0.34
159 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (159 bp):
AGTATCCCCGAGATGAAAATTTTAATATTTCAAAAATAAAAATGAGATTGGAGTATCCCCTCGAA
AATAACGAGGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTCAAAAATAAAAACGAGGGTTG
GAGTATCCCCTCGAAAATAACAAGGTTGG
Found at i:1270061 original size:236 final size:235
Alignment explanation
Indices: 1269432--1270172 Score: 911
Period size: 236 Copynumber: 3.1 Consensus size: 235
1269422 CGAAAATAAA
* * *
1269432 AACAGGGTTAAAGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAATGAGATTGGAGT
1 AACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAACGAGGTTGGAGT
*
1269497 ATCTCTTT-GAAAATAATGGGGTTGGAGTTCCCTTGAGATGAAAATTTTAATATTTCAAAAATAA
66 ATCT-TTTCGAAAATAATGGGGTTGGAGTTCCCCTGAGATGAAAATTTTAATATTTCAAAAATAA
* *** * **
1269561 AAACAGGGCCGGAGTATCCCCTTGAAAATAATAAGGTTGGAGTATCCCCAAGATGAAAATTTTAA
130 AAATAGGGTTAGAGTATCCCCTAGAAAATAACGAGGTTGGAGTAT-CCCAAGATGAAAATTTTAA
* * * *
1269626 TATTATAGAAATAAAAACGGAGTTAGAGTACCCCTCAAAAAT
194 TATTTTAGAAATAAAAACGAAGTTGGAGTACCCCTCAGAAAT
* *
1269668 AAC-GAGGTTAGAGTATCCCCAAGATGAAAATTTTAATATTTCAAAAAT-AAAACGAGGTTGGAG
1 AACAG-GGTTAGAGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAACGAGGTTGGAG
**
1269731 TATCCGTTCGAAAATAATGGGGTTGGAGTTCCCCTGAGATGAAAATTTTAATATTTCAAAAATAA
65 TATCTTTTCGAAAATAATGGGGTTGGAGTTCCCCTGAGATGAAAATTTTAATATTTCAAAAATAA
* * * *
1269796 AAAT-GAGATTTGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCGCGAGATGAAAATTTTA
130 AAATAG-GGTTAGAGTATCCCCTAGAAAATAACGAGGTTGGAGTATCC-CAAGATGAAAATTTTA
* *
1269860 ATATTTTGGAAATAAAAACGAAGTTGGAGTATCTCCTCAGAAAT
193 ATATTTTAGAAATAAAAACGAAGTTGGAGTA-CCCCTCAGAAAT
* * **
1269904 AACAGGGTTGGAGTAT-CTCGAGATGAAAAATTTAATATTTTGAAAATAAAAAC-AGGGTTGGAG
1 AACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAACGA-GGTTGGAG
* * * ** *
1269967 TATCTTTTCGAAATTAACGGGGTTAGA-TTACCCCCCAGATGAAAAATTTAATATTTCAAAAATA
65 TATCTTTTCGAAAATAATGGGGTTGGAGTT-CCCCTGAGATGAAAATTTTAATATTTCAAAAATA
* * * *
1270031 AAAGTAGGGTTAAAGTATCCCCTAGAAAATAACGAGATTGGAATATCCCTAAGATGAAAATTTTA
129 AAAATAGGGTTAGAGTATCCCCTAGAAAATAACGAGGTTGGAGTATCCC-AAGATGAAAATTTTA
* * * * *
1270096 ATATTTCAAAAATAAAAATGAGGTTGGAGTACCCCTTCGGAAAT
193 ATATTTTAGAAATAAAAACGAAGTTGGAGTACCCC-TCAGAAAT
* * * *
1270140 AACAAGGTTGGAGTATCCCCGTGTTGAAAAATT
1 AACAGGGTTAGAGTATCCCCGAGATGAAAAATT
1270173 CGATATTATA
Statistics
Matches: 436, Mismatches: 56, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
234 5 0.01
235 183 0.42
236 233 0.53
237 15 0.03
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (235 bp):
AACAGGGTTAGAGTATCCCCGAGATGAAAAATTTAATATTTCAAAAATAAAAACGAGGTTGGAGT
ATCTTTTCGAAAATAATGGGGTTGGAGTTCCCCTGAGATGAAAATTTTAATATTTCAAAAATAAA
AATAGGGTTAGAGTATCCCCTAGAAAATAACGAGGTTGGAGTATCCCAAGATGAAAATTTTAATA
TTTTAGAAATAAAAACGAAGTTGGAGTACCCCTCAGAAAT
Found at i:1272596 original size:50 final size:51
Alignment explanation
Indices: 1272514--1272630 Score: 166
Period size: 50 Copynumber: 2.3 Consensus size: 51
1272504 AATAGCCTGC
* *
1272514 ATGTATCGATACATTTAGGTTAAAAACCAGAATGTAT-GATACAACGAAAA
1 ATGTATCGATACATTTAGGCTAAAAACCAGAATGTATCGATACAACAAAAA
* * *
1272564 ATGTATCGATACATTTGGGCT-AAACCCTAGAATGTATCGATACAATAAAAA
1 ATGTATCGATACATTTAGGCTAAAAACC-AGAATGTATCGATACAACAAAAA
1272615 ATGTATCGATACATTT
1 ATGTATCGATACATTT
1272631 TCTTTCTAGA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
49 5 0.08
50 28 0.47
51 27 0.45
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (51 bp):
ATGTATCGATACATTTAGGCTAAAAACCAGAATGTATCGATACAACAAAAA
Found at i:1272710 original size:20 final size:20
Alignment explanation
Indices: 1272667--1272740 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 20
1272657 GATATGGTCT
***
1272667 TGTATCAATACATTTCAGACA
1 TGTATCAATACA-TTCACTTA
*
1272688 TGTTTCAATACATTCACTTA
1 TGTATCAATACATTCACTTA
* *
1272708 TGTATCGATACATTCACTGTT
1 TGTATCAATACATTCACT-TA
*
1272729 TGTATCGATACA
1 TGTATCAATACA
1272741 AATTGTAGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 21 0.47
21 24 0.53
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (20 bp):
TGTATCAATACATTCACTTA
Found at i:1272734 original size:21 final size:20
Alignment explanation
Indices: 1272695--1272740 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
1272685 ACATGTTTCA
1272695 ATACATTCACTTATGTATCG
1 ATACATTCACTTATGTATCG
*
1272715 ATACATTCACTGTTTGTATCG
1 ATACATTCACT-TATGTATCG
1272736 ATACA
1 ATACA
1272741 AATTGTAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (20 bp):
ATACATTCACTTATGTATCG
Found at i:1277307 original size:159 final size:159
Alignment explanation
Indices: 1277090--1277422 Score: 370
Period size: 159 Copynumber: 2.1 Consensus size: 159
1277080 AAAAAATATT
* * * * * * *
1277090 GATTCTAT-TAAAATGATGGAAAGACAAGCTTCTTTTGCAAAGCCAAAGCATCAATATCATGTAT
1 GATTCTATGAAAAATGATGAAAAGAAAAGCTTCTCTCGCAAAACCAAAGCATCAATATCAAGTAT
*
1277154 CCCAATGCAAAAAACATATTTATGGTGT-CTAAT-AACAAAAAGAGTTTAGATTAG-TACGAGAA
66 CCCAATGCAAAAAACATATTTATGGT-TCCTAATCAACAAAAA-AGTTAAGATT-GTTACGAGAA
*
1277216 TCCATGTGTGTCTCATTTAAAGGATGAACTTG
128 TCCATGTGTGTCTCATTTAAAGGATAAACTTG
**
1277248 GATTCTATGAAAAATGATGAAAAGAAAAGCTT-TCCTCGCAAAACCAAATTATCAATATCAAGTA
1 GATTCTATGAAAAATGATGAAAAGAAAAGCTTCT-CTCGCAAAACCAAAGCATCAATATCAAGTA
*** * * ** *
1277312 TCCCAATGGGGAGAACATGTTTATGGTTCCTAATCATGAAAAAAGTTAAGATTGTTATGAGAATC
65 TCCCAATGCAAAAAACATATTTATGGTTCCTAATCAACAAAAAAGTTAAGATTGTTACGAGAATC
* * * *
1277377 CATGTTTGTTTCATTTAAGGGATAAACTTT
130 CATGTGTGTCTCATTTAAAGGATAAACTTG
* *
1277407 GATTTTAAGAAAAATG
1 GATTCTATGAAAAATG
1277423 GTTGGAAAAA
Statistics
Matches: 145, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
158 11 0.08
159 128 0.88
160 6 0.04
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (159 bp):
GATTCTATGAAAAATGATGAAAAGAAAAGCTTCTCTCGCAAAACCAAAGCATCAATATCAAGTAT
CCCAATGCAAAAAACATATTTATGGTTCCTAATCAACAAAAAAGTTAAGATTGTTACGAGAATCC
ATGTGTGTCTCATTTAAAGGATAAACTTG
Found at i:1278250 original size:153 final size:153
Alignment explanation
Indices: 1277967--1278685 Score: 543
Period size: 158 Copynumber: 4.6 Consensus size: 153
1277957 AATTTGTTTT
** * * * * * *
1277967 TGTTTTT-TTGCTAAATCATGAAAAGAATGGAGATTGTTACT-AGAATCCTATTTTATCTCATTT
1 TGTTTTTGTTGCCCAATCATGAAAAGAATGGATATTATTA-TGAGAATCCAAGTTTGTTTCATTT
* * * ** * *
1278030 AAAGGG-TAAACTATAATTCTACAAAAAAATGGAAAGAAAATCTCTTTTTATG--AAACCAAA-A
65 -AAGGGATGAA-TTTGATTCTA-AGGAAAATGGAAAGAAAATCT-TTTCT-TGCAAAACCAAAGC
* * * *
1278091 AGTCAATATGTGTATACTGATAAAAAAACA
125 A-TCAATATGTGAATCCTAATAAAAGAACA
** *
1278121 TGTTTTTGTTGCCCAATCACAAAAAGAATGGATATTATTATGA-AATCCAAGTTTATTTCATTTA
1 TGTTTTTGTTGCCCAATCATGAAAAGAATGGATATTATTATGAGAATCCAAGTTTGTTTCATTTA
* * *
1278185 AGGAATGAATTTTGATTCTAAGGAAAATGGAAAGAAAAGCTTTTGTTGCAAAACCAAAGCATCAA
66 AGGGATGAA-TTTGATTCTAAGGAAAATGGAAAGAAAATCTTTTCTTGCAAAACCAAAGCATCAA
**
1278250 TATAGTGAATCCTAATAAAGAGAATG
130 TAT-GTGAATCCTAATAAA-AGAACA
* * * *
1278276 TGTTTATTG-TGCCAAATCATGAAAAGAATGAAGATTATTATGAGAATCCAAGTTTGTCTCATTT
1 TGTTT-TTGTTGCCCAATCATGAAAAGAATGGATATTATTATGAGAATCCAAGTTTGTTTCATTT
* *
1278340 AAGGGATGAGATTTGACTCTAAGGAAATGGTGGAAAGACAAA-CTTTTCTTGCAAAACCAAAGCA
65 AAGGGATGA-ATTTGATTCTAAGGAAA--ATGGAAAGA-AAATCTTTTCTTGCAAAACCAAAGCA
* *
1278404 TCAATTCAT-T-CATCCTAATAATGAGAACA
126 TCAA-T-ATGTGAATCCTAATAA-AAGAACA
* * * * * *
1278433 TATTTTTGTTACCCAATTATGAAAAGAATGGATATTGTTACGAGAATCCATGTTTGTCTT-ATTT
1 TGTTTTTGTTGCCCAATCATGAAAAGAATGGATATTATTATGAGAATCCAAGTTTGT-TTCATTT
* *
1278497 AAGGGATTAGCTTTGATTCTAAGGAAAATGGTGAAAGGAAAATCTTTTCTTGCAAAACCAAAGCA
65 AAGGGATGA-ATTTGATTCTAAGGAAAAT-G-GAAA-GAAAATCTTTTCTTGCAAAACCAAAGCA
* * *
1278562 TCAATATCTTGTATCC-AGATAAAGAGAACG
126 TCAATAT-GTGAATCCTA-ATAAA-AGAACA
* * * * * * * * *
1278592 TCTTTCTGGTGCCAAAT--TCGAAAAGAATTGAAATTATTACGAGAATCCATGTTTGTTTTATTT
1 TGTTTTTGTTGCCCAATCAT-GAAAAGAATGGATATTATTATGAGAATCCAAGTTTGTTTCATTT
* * *
1278655 GAGGGA-CAAGGTTTCATTCTAAGGAAAATGG
65 AAGGGATGAA--TTTGATTCTAAGGAAAATGG
1278686 TGGAAAGACA
Statistics
Matches: 464, Mismatches: 69, Indels: 62
0.78 0.12 0.10
Matches are distributed among these distances:
151 2 0.00
152 4 0.01
153 37 0.08
154 49 0.11
155 65 0.14
156 51 0.11
157 100 0.22
158 125 0.27
159 29 0.06
160 2 0.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (153 bp):
TGTTTTTGTTGCCCAATCATGAAAAGAATGGATATTATTATGAGAATCCAAGTTTGTTTCATTTA
AGGGATGAATTTGATTCTAAGGAAAATGGAAAGAAAATCTTTTCTTGCAAAACCAAAGCATCAAT
ATGTGAATCCTAATAAAAGAACA
Found at i:1278482 original size:157 final size:159
Alignment explanation
Indices: 1278117--1278726 Score: 604
Period size: 158 Copynumber: 3.9 Consensus size: 159
1278107 CTGATAAAAA
* * * * *
1278117 AACATGTTTTTGTTGCCCAATCACAAAAAGAATGGATATTATTATGA-AATCCAAGTTTATTTCA
1 AACATGTTTTTGTTGCCAAATCACGAAAAGAATGGATATTATTACGAGAATCCAAGTTTGTCTCA
* *
1278181 TTTAAGGAATGA-ATTTTGATTCTAAGGAAAA---TGGAAAGAAAAGCTTTTGTTGCAAAACCAA
66 TTTAAGGGATGAGA-TTTGATTCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCAAAACCAA
*
1278242 AGCATCAATAT-AGTGAATCCTAATAAAGAG
130 AGCATCAATATCA-TTAATCCTAATAAAGAG
** * * * *
1278272 AATGTGTTTATTG-TGCCAAATCATGAAAAGAATGAAGATTATTATGAGAATCCAAGTTTGTCTC
1 AACATGTTT-TTGTTGCCAAATCACGAAAAGAATGGATATTATTACGAGAATCCAAGTTTGTCTC
*
1278336 ATTTAAGGGATGAGATTTGACTCTAAGG-AAATGGTGGAAAGACAAA-CTTTTCTTGCAAAACCA
65 ATTTAAGGGATGAGATTTGATTCTAAGGAAAATGGTGGAAAGA-AAAGCTTTTCTTGCAAAACCA
* *
1278399 AAGCATCAAT-TCATTCATCCTAATAATGAG
129 AAGCATCAATATCATTAATCCTAATAAAGAG
* * * * * * * *
1278429 AACATATTTTTGTTACCCAATTATGAAAAGAATGGATATTGTTACGAGAATCCATGTTTGTCTTA
1 AACATGTTTTTGTTGCCAAATCACGAAAAGAATGGATATTATTACGAGAATCCAAGTTTGTCTCA
* * *
1278494 TTTAAGGGATTAGCTTTGATTCTAAGGAAAATGGT-GAAAGGAAAATCTTTTCTTGCAAAACCAA
66 TTTAAGGGATGAGATTTGATTCTAAGGAAAATGGTGGAAA-GAAAAGCTTTTCTTGCAAAACCAA
*
1278558 AGCATCAATATC-TTGTATCC-AGATAAAGAG
130 AGCATCAATATCATT-AATCCTA-ATAAAGAG
* * * * * * * * * *
1278588 AACGTCTTTCTGGTGCCAAAT-TCGAAAAGAATTGAAATTATTACGAGAATCCATGTTTGTTTTA
1 AACATGTTTTTGTTGCCAAATCACGAAAAGAATGGATATTATTACGAGAATCCAAGTTTGTCTCA
* ** * * * **
1278652 TTTGAGGGACAAGGTTTCATTCTAAGGAAAATGGTGGAAAGACAA-CTTTT-TTTTATGAAACCA
66 TTTAAGGGATGAGATTTGATTCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCA--AAACCA
1278715 AAGCATCAATAT
129 AAGCATCAATAT
1278727 TTCGTATCCC
Statistics
Matches: 385, Mismatches: 52, Indels: 33
0.82 0.11 0.07
Matches are distributed among these distances:
155 39 0.10
156 47 0.12
157 101 0.26
158 163 0.42
159 35 0.09
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (159 bp):
AACATGTTTTTGTTGCCAAATCACGAAAAGAATGGATATTATTACGAGAATCCAAGTTTGTCTCA
TTTAAGGGATGAGATTTGATTCTAAGGAAAATGGTGGAAAGAAAAGCTTTTCTTGCAAAACCAAA
GCATCAATATCATTAATCCTAATAAAGAG
Found at i:1278606 original size:316 final size:311
Alignment explanation
Indices: 1278117--1278724 Score: 760
Period size: 316 Copynumber: 1.9 Consensus size: 311
1278107 CTGATAAAAA
* * *
1278117 AACATGTTTTTGTTGCCCAATCACAAAAAGAATGGATATTATTATGAAATCCAAGTTTATTTCAT
1 AACATATTTTTGTTACCCAATCACAAAAAGAATGGATATTATTACGAAATCCAAGTTTATTTCAT
* *
1278182 TTAAGGAATGAATTTTGATTCTAAGGAAAATGGAAAGAAAAGCTTTTGTTGCAAAACCAAAGCAT
66 TTAAGGAATGAACTTTGATTCTAAGGAAAATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCAT
* * *
1278247 CAATATAGTGAATCCTAATAAAGAGAATGTGTTTATTGTGCCAAA-TCATGAAAAGAA-TGAAGA
131 CAATATAGTGAATCCTAATAAAGAGAACGTCTTTATGGTGCCAAATTC--GAAAAGAATTGAA-A
* ** *
1278310 TTATTATGAGAATCCAAGTTTGTCTCATTTAAGGGATGAGATTTGACTCTAAGG-AAATGGTGGA
193 TTATTACGAGAATCCAAGTTTGTCTCATTTAAGGGACAAGATTTCACTCTAAGGAAAATGGTGGA
1278374 AAGACAAACTTTTCTTGCA-AAACCAAAGCATCAATTCATTCATCCTAATAATGAG
258 AAGAC-AACTTTT-TTGCAGAAACCAAAGCATCAATTCATTCATCCTAATAATGAG
* ** * * *
1278429 AACATATTTTTGTTACCCAATTATGAAAAGAATGGATATTGTTACGAGAATCCATGTTTGTCTT-
1 AACATATTTTTGTTACCCAATCACAAAAAGAATGGATATTATTACGA-AATCCAAGTTTAT-TTC
* * * *
1278493 ATTTAAGGGATTAGCTTTGATTCTAAGGAAAATGGTGAAAGGAAAATCTTTTCTTGCAAAACCAA
64 ATTTAAGGAATGAACTTTGATTCTAAGGAAAAT-G-GAAA-GAAAAGCTTTTCTTGCAAAACCAA
** * *
1278558 AGCATCAATATCTTGTATCC-AGATAAAGAGAACGTCTTTCTGGTGCCAAATTCGAAAAGAATTG
126 AGCATCAATATAGTGAATCCTA-ATAAAGAGAACGTCTTTATGGTGCCAAATTCGAAAAGAATTG
* * * * * *
1278622 AAATTATTACGAGAATCCATGTTTGTTTTATTTGAGGGACAAGGTTTCATTCTAAGGAAAATGGT
190 AAATTATTACGAGAATCCAAGTTTGTCTCATTTAAGGGACAAGATTTCACTCTAAGGAAAATGGT
**
1278687 GGAAAGACAACTTTTTTTTATGAAACCAAAGCATCAAT
255 GGAAAGACAACTTTTTTGCA-GAAACCAAAGCATCAAT
1278725 ATTTCGTATC
Statistics
Matches: 251, Mismatches: 34, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
312 40 0.16
313 40 0.16
314 6 0.02
315 65 0.26
316 98 0.39
317 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (311 bp):
AACATATTTTTGTTACCCAATCACAAAAAGAATGGATATTATTACGAAATCCAAGTTTATTTCAT
TTAAGGAATGAACTTTGATTCTAAGGAAAATGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCAT
CAATATAGTGAATCCTAATAAAGAGAACGTCTTTATGGTGCCAAATTCGAAAAGAATTGAAATTA
TTACGAGAATCCAAGTTTGTCTCATTTAAGGGACAAGATTTCACTCTAAGGAAAATGGTGGAAAG
ACAACTTTTTTGCAGAAACCAAAGCATCAATTCATTCATCCTAATAATGAG
Found at i:1279206 original size:159 final size:156
Alignment explanation
Indices: 1278994--1279629 Score: 497
Period size: 159 Copynumber: 4.0 Consensus size: 156
1278984 AGAGCCAAAT
* * * * * * * **
1278994 TTTGATTC-CAAGGAAATGATGGAATGAAATGATTTTCTTATGAAATCAAAGCATCAGTATTTTG
1 TTTGATTCTAAAGAAAATGGTGGAAAGAAAAGCTTTTCTTATGAAATCAAAGCATCAATATCCTG
* * * * *
1279058 TATTCTAATGAAAAGAACGTGTTTATAGTGCGAAATCACAAGAACTATAGAGATTAATATAAGAA
66 TATCCTAATGAAGAGAACATGTTTAT-GTGCCAAATCACAA-AA-TATAGAGATTATTATAAGAA
* *
1279123 TGCATGTTTATCTCTTTTGAAGGAT-AGAC
128 TCCATGTTTATCTCATTTGAAGGATGA-AC
*
1279152 TTTGATTCTAAA-AACAATGGTGGAAAGAAAAGCTTTTCTTATGAAA-CTAAAGCATCAATATCG
1 TTTGATTCTAAAGAA-AATGGTGGAAAGAAAAGCTTTTCTTATGAAATC-AAAGCATCAATATCC
* * * *
1279215 TGTATCCTAATGAGGAGAACATGTTTATGCT-CCAAATCGCGAAAAAAGT-GAAGATTATTGTAA
64 TGTATCCTAATGAAGAGAACATGTTTATG-TGCCAAATCAC-AAAATA-TAG-AGATTATTATAA
* * *
1279278 GAATCCATGTTCATCTCATTTGAGGGCTGAAC
125 GAATCCATGTTTATCTCATTTGAAGGATGAAC
* ** *
1279310 ATTGATTCTAAAGAAAATGGT-GATAAGAAAAGCTTTTCTTAAAAAATCAAAGCATTAATATCCT
1 TTTGATTCTAAAGAAAATGGTGGA-AAGAAAAGCTTTTCTTATGAAATCAAAGCATCAATATCCT
* * * *
1279374 ATATCCCAATGTAGAGAACATGTTTATGGTGCCAAATCACAAAAATAAATGAGATTATTATGAA-
65 GTATCCTAATGAAGAGAACATGTTTAT-GTGCCAAATCAC-AAAATATA-GAGATTATTAT-AAG
* *
1279438 AATTCATGTTTGTCTCATTTGAAGGATGAAC
126 AATCCATGTTTATCTCATTTGAAGGATGAAC
* * * * * * *
1279469 TTTGATTCTAAGGAAAATAGTGG-AAGAACAA--TTTTATT-TGTGAATCAAAGCATCATTAACA
1 TTTGATTCTAAAGAAAATGGTGGAAAGAA-AAGCTTTTCTTATG-AAATCAAAGCATCAATATCC
* * ** * * * * * **
1279530 TGTATTC-ATATGAGGAGAATGTGTTTATGGTGTCAAATCATGAAAAAATTGAAATTATTACGAG
64 TGTATCCTA-ATGAAGAGAACATGTTTAT-GTGCCAAATCA-CAAAATATAGAGATTATTATAAG
* * * *
1279594 AATCCATGTTTGTTTTATTTGAGGGATGAAC
126 AATCCATGTTTATCTCATTTGAAGGATGAAC
1279625 TTTGA
1 TTTGA
1279630 CTTAAAAAAC
Statistics
Matches: 385, Mismatches: 71, Indels: 46
0.77 0.14 0.09
Matches are distributed among these distances:
155 1 0.00
156 42 0.11
157 61 0.16
158 136 0.35
159 141 0.37
160 4 0.01
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (156 bp):
TTTGATTCTAAAGAAAATGGTGGAAAGAAAAGCTTTTCTTATGAAATCAAAGCATCAATATCCTG
TATCCTAATGAAGAGAACATGTTTATGTGCCAAATCACAAAATATAGAGATTATTATAAGAATCC
ATGTTTATCTCATTTGAAGGATGAAC
Found at i:1279496 original size:158 final size:157
Alignment explanation
Indices: 1279071--1279496 Score: 452
Period size: 158 Copynumber: 2.7 Consensus size: 157
1279061 TCTAATGAAA
* * * * * * *
1279071 AGAACGTGTTTATAGTGCGAAATCACAAGAACTATA-GAGATTAATATAAGAATGCATGTTTATC
1 AGAACATGTTTATGGTGCCAAATCACAA-AAATAAATGAGATTATTATAAGAATCCATGTTTATC
* * **
1279135 TCTTTTGAAGGAT-AGACTTTGATTCTAAAAACAATGGTGGAAAGAAAAGCTTTTCTTATGAAAC
65 TCATTTGAAGGATGA-ACTTTGATTCTAAGAA-AATGGTGG-AAGAAAAGCTTTTCTTAAAAAAC
* * *
1279199 TAAAGCATCAATATCGTGTATCCTAATGAGG
127 TAAAGCATCAATATCCTATATCCCAATGAGG
* * * * * *
1279230 AGAACATGTTTATGCT-CCAAATCGCGAAAA-AAGTGAAGATTATTGTAAGAATCCATGTTCATC
1 AGAACATGTTTATGGTGCCAAATCACAAAAATAAATG-AGATTATTATAAGAATCCATGTTTATC
* * * *
1279293 TCATTTGAGGGCTGAACATTGATTCTAAAGAAAATGGTGATAAGAAAAGCTTTTCTTAAAAAA-T
65 TCATTTGAAGGATGAACTTTGATTCT-AAGAAAATGGTG-GAAGAAAAGCTTTTCTTAAAAAACT
*
1279357 CAAAGCATTAATATCCTATATCCCAATGTA-G
128 -AAAGCATCAATATCCTATATCCCAATG-AGG
* *
1279388 AGAACATGTTTATGGTGCCAAATCACAAAAATAAATGAGATTATTATGAA-AATTCATGTTTGTC
1 AGAACATGTTTATGGTGCCAAATCACAAAAATAAATGAGATTATTAT-AAGAATCCATGTTTATC
*
1279452 TCATTTGAAGGATGAACTTTGATTCTAAGGAAAATAGTGGAAGAA
65 TCATTTGAAGGATGAACTTTGATTCTAA-GAAAATGGTGGAAGAA
1279497 CAATTTTATT
Statistics
Matches: 218, Mismatches: 38, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
156 1 0.00
157 4 0.02
158 124 0.57
159 83 0.38
160 6 0.03
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (157 bp):
AGAACATGTTTATGGTGCCAAATCACAAAAATAAATGAGATTATTATAAGAATCCATGTTTATCT
CATTTGAAGGATGAACTTTGATTCTAAGAAAATGGTGGAAGAAAAGCTTTTCTTAAAAAACTAAA
GCATCAATATCCTATATCCCAATGAGG
Found at i:1281128 original size:19 final size:20
Alignment explanation
Indices: 1281083--1281175 Score: 136
Period size: 19 Copynumber: 4.8 Consensus size: 20
1281073 CTGCTAGTTT
*
1281083 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAA
*
1281103 TATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
*
1281122 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAA
*
1281142 TATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
1281161 CATGTATCGATACAA
1 CATGTATCGATACAA
1281176 AGCATAATGT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
19 34 0.52
20 31 0.48
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1281186 original size:59 final size:59
Alignment explanation
Indices: 1281084--1281213 Score: 167
Period size: 59 Copynumber: 2.2 Consensus size: 59
1281074 TGCTAGTTTC
** * *
1281084 ATGTATCGATACAATTGAGTATGTATCGATACAATGAACATGTATCGATACAATT-GAGT
1 ATGTATCGATACAATTGAACATGTATCGATACAAAGAACATGTATCAATACAATTGGA-T
*
1281143 ATGTATCGATACAA-TGAACATGTATCGATACAAAGCATA-ATGTATCAATACATTTGGAT
1 ATGTATCGATACAATTGAACATGTATCGATACAAAG-A-ACATGTATCAATACAATTGGAT
1281202 ATGTATCGATAC
1 ATGTATCGATAC
1281214 TTTCTAGGGT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
58 18 0.29
59 42 0.67
60 3 0.05
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (59 bp):
ATGTATCGATACAATTGAACATGTATCGATACAAAGAACATGTATCAATACAATTGGAT
Found at i:1281194 original size:39 final size:39
Alignment explanation
Indices: 1281083--1281175 Score: 186
Period size: 39 Copynumber: 2.4 Consensus size: 39
1281073 CTGCTAGTTT
1281083 CATGTATCGATACAATTGAGTATGTATCGATACAATGAA
1 CATGTATCGATACAATTGAGTATGTATCGATACAATGAA
1281122 CATGTATCGATACAATTGAGTATGTATCGATACAATGAA
1 CATGTATCGATACAATTGAGTATGTATCGATACAATGAA
1281161 CATGTATCGATACAA
1 CATGTATCGATACAA
1281176 AGCATAATGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (39 bp):
CATGTATCGATACAATTGAGTATGTATCGATACAATGAA
Found at i:1282176 original size:15 final size:15
Alignment explanation
Indices: 1282156--1282187 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1282146 CTAATCCTAT
*
1282156 GACTCATCGTCACTA
1 GACTCATCGCCACTA
1282171 GACTCATCGCCACTA
1 GACTCATCGCCACTA
1282186 GA
1 GA
1282188 GGAAAAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.34, G:0.16, T:0.22
Consensus pattern (15 bp):
GACTCATCGCCACTA
Found at i:1291239 original size:19 final size:19
Alignment explanation
Indices: 1291195--1291267 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1291185 TTGCTAGTTT
* *
1291195 CATGTATCGATCCAATTGAG
1 CATGTATCGATACAA-TGAA
1291215 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1291234 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
1291255 -ATGTATCGATACA
1 CATGTATCGATACA
1291268 TCTGGATATG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 19 0.40
20 28 0.58
21 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1291278 original size:20 final size:19
Alignment explanation
Indices: 1291196--1291286 Score: 74
Period size: 20 Copynumber: 4.6 Consensus size: 19
1291186 TGCTAGTTTC
* **
1291196 ATGTATCGATCCAATTGAGC
1 ATGTATCGATACAA-TGAAT
*
1291216 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAT
* *
1291235 ATGTATCGATACAAAGCAT
1 ATGTATCGATACAATGAAT
* *
1291254 AATGTATCGATACATCTGGAT
1 -ATGTATCGATACA-ATGAAT
*
1291275 ATGTATTGATAC
1 ATGTATCGATAC
1291287 TTTTAGGGTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
19 20 0.33
20 37 0.62
21 3 0.05
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATGAAT
Found at i:1291945 original size:158 final size:157
Alignment explanation
Indices: 1291612--1292477 Score: 586
Period size: 159 Copynumber: 5.5 Consensus size: 157
1291602 TGAATAACTT
* * * * *
1291612 ATTTGAGGGATTAACATTGATTCTAAGGAAAATTATGGAAAGAAAAGCTTTTCTTACGAAACCAA
1 ATTTAAGGGATAAACTTTGATTCCAAGGAAAA-TATGGAAAGAAAAGCTTTTCTTACAAAACCAA
** * * * * * ** *
1291677 AGTGTCAATACCT-TGTATTCCAATAAAGAGAACATGTATATTGTGCAAAATCACAAAAAGAATA
65 AGCATCAATA-TTATGTA-TCCAATAAGGAAAACGTGTTTATACTGCCAAATCACAAAAAGAATA
* * * *
1291741 GAGACTATTAT-AGGAATCTATGTTTGAT-TT
128 GAGAATATTATGA-GAATCCAAGTTTG-TCTC
* * * *
1291771 ATTTAGGGGACAAACTTTGATTCCAAGGTAAAATATTGAAAGAAAAGCTTTTCTTGCAAAACCAA
1 ATTTAAGGGATAAACTTTGATTCCAAGG-AAAATATGGAAAGAAAAGCTTTTCTTACAAAACCAA
* * * * *
1291836 AGCATCAATATTGTGTATCTAATAAGGAAAATGTGTTTAT-CTAGCTAAATCAAAAAAAGAATAG
65 AGCATCAATATTATGTATCCAATAAGGAAAACGTGTTTATACT-GCCAAATCACAAAAAGAATAG
*
1291900 AGAATATTATGTGAATCCAAGTTTGTCTC
129 AGAATATTATGAGAATCCAAGTTTGTCTC
* * * * * **
1291929 ACTTAAGGGATGAACTTTGATT-CAAGGAAAATGGTGAAAATAAAAGCTTTTCTTATGAAACCAA
1 ATTTAAGGGATAAACTTTGATTCCAAGGAAAAT-ATGGAAAGAAAAGCTTTTCTTACAAAACCAA
* * ** *
1291993 AGCATCAATATTATGTATTACAATAAGGAGAACGTGTTTATGGTGCCAAGTCACAAAAAGAAATA
65 AGCATCAATATTATGTA-TCCAATAAGGAAAACGTGTTTATACTGCCAAATCACAAAAAG-AATA
* * * *
1292058 G-GATTATTGTGAGAATCCATGTTTTTCTC
128 GAGAATATTATGAGAATCCAAGTTTGTCTC
* * * * * * *
1292087 ATTTGAA-GGATGACCTTGGATTCTAGGGTAAAAGATGGAAAGAAAAGCTTTTCTTGCAAAAACC
1 ATTT-AAGGGATAAACTTTGATTCCAAGG-AAAATATGGAAAGAAAAGCTTTTCTTAC-AAAACC
* * * * * * ** *
1292151 AAAACATCAATATCATGCATCCCAATGAGGAGAACGTGTTTATACTACCAAATCATGAAAAGAGT
63 AAAGCATCAATATTATGTAT-CCAATAAGGAAAACGTGTTTATACTGCCAAATCACAAAAAGAAT
* *
1292216 -GAAAATTATTATGAGAATCCAAGTTTATCTC
127 AGAGAA-TATTATGAGAATCCAAGTTTGTCTC
* ** * * * * *** *
1292247 ATTTAAGGGACAAACTTTGACACTAGGGAAAATAGTGGAAATATAAA-CTTTTCCTGTGAAACAA
1 ATTTAAGGGATAAACTTTGATTCCAAGGAAAATA-TGGAAAGA-AAAGCTTTTCTTACAAAACCA
* * * * ** *
1292311 AAG-ATTCAATATTGTGTATCCCAATGAGAAAAACATGTTTATGGTGCCAAATCATAAAAAGAAT
64 AAGCA-TCAATATTATGTAT-CCAATAAGGAAAACGTGTTTATACTGCCAAATCACAAAAAGAAT
* * * * *
1292375 GGAGACTATTATGAGAA-CCTAAGTTTTTTTT
127 AGAGAATATTATGAGAATCC-AAGTTTGTCTC
* ** * ** * * * *
1292406 ATTTAAGGGATGAGGTTTGGTTTTAAGGAAAATGA-GGCAAAAAAAAGCTTTTCTTGCGAAACTA
1 ATTTAAGGGATAAACTTTGATTCCAAGGAAAAT-ATGG-AAAGAAAAGCTTTTCTTACAAAACCA
1292470 AAGCATCA
64 AAGCATCA
1292478 GTGTCATTAA
Statistics
Matches: 559, Mismatches: 122, Indels: 52
0.76 0.17 0.07
Matches are distributed among these distances:
156 5 0.01
157 47 0.08
158 156 0.28
159 225 0.40
160 123 0.22
161 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (157 bp):
ATTTAAGGGATAAACTTTGATTCCAAGGAAAATATGGAAAGAAAAGCTTTTCTTACAAAACCAAA
GCATCAATATTATGTATCCAATAAGGAAAACGTGTTTATACTGCCAAATCACAAAAAGAATAGAG
AATATTATGAGAATCCAAGTTTGTCTC
Found at i:1292454 original size:319 final size:316
Alignment explanation
Indices: 1291789--1292477 Score: 714
Period size: 319 Copynumber: 2.2 Consensus size: 316
1291779 GACAAACTTT
* * * * * ** *
1291789 GATTCCAAGGTAAAATATTGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATTGTGTAT
1 GATTCTAAGGTAAAAGATGGAAAAAAAAGCTTTTCTTGCAAAACCAAAACATCAATATCATGCAT
* * * * *
1291854 CTAATAAGGAAAATGTGTTTATCTAGCTAAATCAAAAAAAGAATAGAGAATATTATGTGAATCCA
66 CCAATAAGGAAAACGTGTTTATCTAGCCAAATCAAAAAAAGAATAGAAAATATTATGAGAATCCA
* ** ** * *
1291919 AGTTTGTCTCACTTAAGGGATGAACTTTGATTCAAGGAAAATGGTGAAAATAAAAGCTTTTCTTA
131 AGTTTATCTCACTTAAGGGACAAACTTTGACACAAGGAAAATAGTGAAAATAAAAGCTTTTCCTA
* * * * * *
1291984 TGAAACCAAAGCATCAATATTATGTATTACAATAAGGAGAACGTGTTTATGGTGCCAAGTCACAA
196 TGAAACAAAAGCATCAATATTATGTATCACAATAAGAAAAACATGTTTATGGTGCCAAATCACAA
* * *
1292049 AAAGAAATAGGATTATTGTGAGAATCCATGTTTTTCTCATTTGAAGGATGACCTTG
261 AAAGAAATAGGACTATTATGAGAATCCAAGTTTTTCTCATTTGAAGGATGACCTTG
* *
1292105 GATTCTAGGGTAAAAGATGGAAAGAAAAGCTTTTCTTGCAAAAACCAAAACATCAATATCATGCA
1 GATTCTAAGGTAAAAGATGGAAAAAAAAGCTTTTCTTGC-AAAACCAAAACATCAATATCATGCA
* * ** *
1292170 TCCCAATGAGGAGAACGTGTTTATACTA-CCAAATCATGAAAAGAGT-GAAAATTATTATGAGAA
65 T-CCAATAAGGAAAACGTGTTTAT-CTAGCCAAATCAAAAAAAGAATAGAAAA-TATTATGAGAA
* * *
1292233 TCCAAGTTTATCTCATTTAAGGGACAAACTTTGACACTAGGGAAAATAGTGGAAATATAAA-CTT
127 TCCAAGTTTATCTCACTTAAGGGACAAACTTTGACAC-AAGGAAAATAGTGAAAATA-AAAGCTT
* * * *
1292297 TTCCTGTGAAACAAAAG-ATTCAATATTGTGTATCCCAATGAGAAAAACATGTTTATGGTGCCAA
190 TTCCTATGAAACAAAAGCA-TCAATATTATGTATCACAATAAGAAAAACATGTTTATGGTGCCAA
* * * * **
1292361 ATCATAAAAAG-AATGGAGACTATTATGAGAA-CCTAAGTTTTTTTTATTT-AAGGGATGAGGTT
254 ATCACAAAAAGAAATAG-GACTATTATGAGAATCC-AAGTTTTTCTCATTTGAA-GGATGA-CCT
1292423 TG
315 TG
* * * *
1292425 G-TTTTAAGG-AAAATGA-GGCAAAAAAAAGCTTTTCTTGCGAAACTAAAGCATCA
1 GATTCTAAGGTAAAA-GATGG-AAAAAAAAGCTTTTCTTGCAAAACCAAAACATCA
1292478 GTGTCATTAA
Statistics
Matches: 307, Mismatches: 53, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
316 35 0.11
317 26 0.08
318 100 0.33
319 139 0.45
320 7 0.02
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.29
Consensus pattern (316 bp):
GATTCTAAGGTAAAAGATGGAAAAAAAAGCTTTTCTTGCAAAACCAAAACATCAATATCATGCAT
CCAATAAGGAAAACGTGTTTATCTAGCCAAATCAAAAAAAGAATAGAAAATATTATGAGAATCCA
AGTTTATCTCACTTAAGGGACAAACTTTGACACAAGGAAAATAGTGAAAATAAAAGCTTTTCCTA
TGAAACAAAAGCATCAATATTATGTATCACAATAAGAAAAACATGTTTATGGTGCCAAATCACAA
AAAGAAATAGGACTATTATGAGAATCCAAGTTTTTCTCATTTGAAGGATGACCTTG
Found at i:1295182 original size:5 final size:5
Alignment explanation
Indices: 1295166--1295204 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
1295156 GTCCACCATA
* *
1295166 TTTAT TTGAT TTTAT TTTAT TCTAT TTTAT TTTGAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT-AT TTT
1295205 TCCATGGCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:1297705 original size:24 final size:24
Alignment explanation
Indices: 1297670--1297717 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
1297660 ACACTGTATC
*
1297670 GATACATGAACAGTGATGAATAGT
1 GATACATAAACAGTGATGAATAGT
1297694 GATACATAAACAGTGATGAATAGT
1 GATACATAAACAGTGATGAATAGT
1297718 AATGTATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.25
Consensus pattern (24 bp):
GATACATAAACAGTGATGAATAGT
Found at i:1297821 original size:32 final size:33
Alignment explanation
Indices: 1297780--1297844 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1297770 CAATTCATGA
1297780 TGTATCAATA-TAATG-AACATGTATCGATACAT
1 TGTATCAATACTAA-GCAACATGTATCGATACAT
* *
1297812 TGTATCAATACTAAGCAATATGTATTGATACAT
1 TGTATCAATACTAAGCAACATGTATCGATACAT
1297845 CTGGGTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 11 0.38
33 18 0.62
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (33 bp):
TGTATCAATACTAAGCAACATGTATCGATACAT
Found at i:1298199 original size:19 final size:20
Alignment explanation
Indices: 1298154--1298207 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
1298144 CTGCTAGTTT
*
1298154 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAA
*
1298174 TATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
1298193 CATGTATCGATACAA
1 CATGTATCGATACAA
1298208 AGCATAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1298219 original size:20 final size:19
Alignment explanation
Indices: 1298154--1298224 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
1298144 CTGCTAGTTT
* *
1298154 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-AGAA
* *
1298174 TATGTATCGATACAATGAA
1 CATGTATCGATACAAAGAA
1298193 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAAAG-A-A
1298214 -ATGTATCGATA
1 CATGTATCGATA
1298225 TATCTGGATA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.40
20 26 0.58
21 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAAAGAA
Found at i:1298859 original size:21 final size:21
Alignment explanation
Indices: 1298835--1298876 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1298825 TTTAATAAAA
*
1298835 CTCCCCCTTAATAAAGTAATT
1 CTCCCCCTTAATAAAATAATT
*
1298856 CTCCCCCTTGATAAAATAATT
1 CTCCCCCTTAATAAAATAATT
1298877 AAAGCTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (21 bp):
CTCCCCCTTAATAAAATAATT
Found at i:1308473 original size:69 final size:68
Alignment explanation
Indices: 1308392--1308611 Score: 325
Period size: 69 Copynumber: 3.2 Consensus size: 68
1308382 AGGAATGGGA
* *
1308392 TTGGAGTATCCCCGACAATGATAATTTAGACAAAATAAGACTTAAATTTCGATGAGTTTAAAAAC
1 TTGGAGTATCCCCGACAATGATAATTTAGACAAAATAAGATTTAAATTTTGATGAGTTTAAAAA-
1308457 GAGG
65 GAGG
* *
1308461 TTGGAGTATCCCCAACAATGATAATTTAGACAAAATAAAATTTAAATTTTGATGAGTTTAAAAAT
1 TTGGAGTATCCCCGACAATGATAATTTAGACAAAATAAGATTTAAATTTTGATGAGTTTAAAAA-
1308526 G-GG
65 GAGG
* *
1308529 ATTGGAGTATCCTCGACAATGATAATTTGGACAAAATAAGATTTAAATTTTGATGAGTTTAAAAA
1 -TTGGAGTATCCCCGACAATGATAATTTAGACAAAATAAGATTTAAATTTTGATGAGTTTAAAAA
*
1308594 TAGGG
65 GA-GG
*
1308599 TTAGAGTATCCCC
1 TTGGAGTATCCCC
1308612 TCGGAGGAAT
Statistics
Matches: 136, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
68 2 0.01
69 132 0.97
70 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (68 bp):
TTGGAGTATCCCCGACAATGATAATTTAGACAAAATAAGATTTAAATTTTGATGAGTTTAAAAAG
AGG
Found at i:1308846 original size:97 final size:97
Alignment explanation
Indices: 1308561--1308822 Score: 427
Period size: 97 Copynumber: 2.7 Consensus size: 97
1308551 TAATTTGGAC
* * * *
1308561 AAAATAAGATTTAAATTTTGATGAGTTTAAAAATAGGGTTAGAGTATCCCCTCGGAGGAATGGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAATGGGGTTGGAGTATCCCCTCGGAGGAATGAGG
1308626 TTGGAGTGTCCCCGATGATGACAATTTAACCG
66 TTGGAGTGTCCCCGATGATGACAATTTAACCG
*
1308658 AAAATAAGATTTAAATTTTGATAGGTTTAAAAATGGGGTTGGAGTATCCCCTCGGAGGAAT-AGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAATGGGGTTGGAGTATCCCCTCGGAGGAATGA-G
*
1308722 GTTGGAGTGTCCCCGATGATGACAATTTAATCG
65 GTTGGAGTGTCCCCGATGATGACAATTTAACCG
* * *
1308755 AAAATAAGATTTAAATTTGGATAAGTTTAAAAACGGGGTTGGAGTATCCCCTCGAAGGAATGAGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAATGGGGTTGGAGTATCCCCTCGGAGGAATGAGG
1308820 TTG
66 TTG
1308823 ATATATCCCC
Statistics
Matches: 153, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
97 152 0.99
98 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (97 bp):
AAAATAAGATTTAAATTTTGATAAGTTTAAAAATGGGGTTGGAGTATCCCCTCGGAGGAATGAGG
TTGGAGTGTCCCCGATGATGACAATTTAACCG
Found at i:1310929 original size:9 final size:8
Alignment explanation
Indices: 1310896--1310927 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
1310886 CAGCTACTCA
1310896 TTTTTGTTC
1 TTTTT-TTC
1310905 TTTTTTTC
1 TTTTTTTC
1310913 TTTTTTTC
1 TTTTTTTC
1310921 TTTTTTT
1 TTTTTTT
1310928 TCATGCTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.78
9 5 0.22
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:1311183 original size:14 final size:15
Alignment explanation
Indices: 1311164--1311196 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1311154 TTATTTTTTA
*
1311164 TTTTGATTTTA-GAT
1 TTTTGATTTGATGAT
1311178 TTTTGATTTGATGAT
1 TTTTGATTTGATGAT
1311193 TTTT
1 TTTT
1311197 TTATTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.67
Consensus pattern (15 bp):
TTTTGATTTGATGAT
Found at i:1311239 original size:8 final size:8
Alignment explanation
Indices: 1311141--1311221 Score: 50
Period size: 8 Copynumber: 10.9 Consensus size: 8
1311131 TTTCATCATC
1311141 ATTTTTT-
1 ATTTTTTG
1311148 ATTTTATT-
1 ATTTT-TTG
1311156 ATTTTTT-
1 ATTTTTTG
1311163 A--TTTTG
1 ATTTTTTG
*
1311169 A-TTTTAG
1 ATTTTTTG
1311176 A-TTTTTG
1 ATTTTTTG
**
1311183 ATTTGATG
1 ATTTTTTG
*
1311191 ATTTTTTT
1 ATTTTTTG
1311199 ATTTTTTG
1 ATTTTTTG
**
1311207 ATTCATTG
1 ATTTTTTG
1311215 ATTTTTT
1 ATTTTTT
1311222 AAAAATTTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
5 4 0.07
6 1 0.02
7 19 0.33
8 34 0.59
ACGTcount: A:0.19, C:0.01, G:0.09, T:0.72
Consensus pattern (8 bp):
ATTTTTTG
Done.