Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 73
Found at i:4119929 original size:27 final size:28
Alignment explanation
Indices: 4119894--4119949 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
4119884 TATTTGTTCA
* *
4119894 TTAGTCCCT-GATGTTTCTATTTTTTATT
1 TTAGTCCCTAAAT-TTTCCATTTTTTATT
4119922 TTAG-CCCTAAATTTTCCATTTTTTATT
1 TTAGTCCCTAAATTTTCCATTTTTTATT
4119949 T
1 T
4119950 AGATCCTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.18, C:0.16, G:0.07, T:0.59
Consensus pattern (28 bp):
TTAGTCCCTAAATTTTCCATTTTTTATT
Found at i:4120284 original size:24 final size:26
Alignment explanation
Indices: 4120249--4120300 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
4120239 TAATTTCTTT
4120249 TTTTTTTCATGT-A-TGTATATTCATA
1 TTTTTTTCATGTAAGTGTATATT-ATA
4120274 TTTTTTT-ATGTAAGTGTATATTATA
1 TTTTTTTCATGTAAGTGTATATTATA
4120299 TT
1 TT
4120301 AGATTACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 4 0.16
25 13 0.52
26 8 0.32
ACGTcount: A:0.25, C:0.04, G:0.10, T:0.62
Consensus pattern (26 bp):
TTTTTTTCATGTAAGTGTATATTATA
Found at i:4126325 original size:22 final size:22
Alignment explanation
Indices: 4126300--4126343 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4126290 GATTAGGTCC
4126300 TTATATTAAT-GTTTATTTTATT
1 TTATATTAATAGTTT-TTTTATT
* *
4126322 TTATTTTTATAGTTTTTTTATT
1 TTATATTAATAGTTTTTTTATT
4126344 CTTTTTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (22 bp):
TTATATTAATAGTTTTTTTATT
Found at i:4128283 original size:337 final size:339
Alignment explanation
Indices: 4127661--4128301 Score: 1000
Period size: 337 Copynumber: 1.9 Consensus size: 339
4127651 CCCTAAGATA
* *
4127661 TTAGGGTAATGAATATAAAAGGGATGTGTTAGGTCTAGCAGCCGTTTTAACACACACATAATCTT
1 TTAGGGTAATGAATATAAAAGGGATGTGTTAGGTCTAGCAGCCATTTTAACACACACAAAATCTT
* * * *
4127726 CAGTCGTTTTTCTCAAAAACTGTTTTTGGGAAAACAAATATTGCTCTAAATCAGGTGAGCTGAGT
66 CAGTCATTTTTCTCAAAAACAG-TTTTGGGAAAACAAATATTGCTCTAAATCAGGTGAACTGAAT
* * * * *
4127791 AGAGGCCGAGACATGATTTCGTGGAGGCTTATGATTTGAATCGATCGACGCCACCATTATTCGCT
130 AGAGGCCGAGACATGATTTCGTAGAGGCTTATAATTCGAATCGATCGACACCACCATTATTCGAT
* * *
4127856 GTTGTTCTTGCTATTTTTCAAGGAACCCGCTGTAAGTATTCGCATCTCTTCCTCTCGATTTCGGT
195 GTTATTCTTGCTATTTTTCAAGGAACCCGCTGTAAGTATTCGCATCCCTTCCTCCCGATTTCGGT
*
4127921 TTTACGTACTTGGATCGCTGGTGAGACCATCGAGTTTTGTTTCCGTTGTGCCATGGAGTGCGTCG
260 TTTACGTACTTGGATCGCCGGTGAGACCATCGAGTTTTGTTTCCGTTGTGCCATGGAGTGCGTCG
4127986 ACTGTCCCAACGATG
325 ACTGTCCCAACGATG
* * *
4128001 TTAGGGTAATGGATATAAAAGGGATGTGTTAGGTCTTGCAGTCATTTTAACACACACAAAATCTT
1 TTAGGGTAATGAATATAAAAGGGATGTGTTAGGTCTAGCAGCCATTTTAACACACACAAAATCTT
* * * *
4128066 CAGTCATTTTTCTCGAAAACAAG-TTTGGG-GAA-AAATATTGCTCTTAATCGGGTGAACTGAAT
66 CAGTCATTTTTCTCAAAAAC-AGTTTTGGGAAAACAAATATTGCTCTAAATCAGGTGAACTGAAT
*
4128128 AGAGGCCGAGACGTGATTTCGTAGAGGCTTATAATTCGAATCGATCGACACCACCATTATTCGAT
130 AGAGGCCGAGACATGATTTCGTAGAGGCTTATAATTCGAATCGATCGACACCACCATTATTCGAT
* * *
4128193 GTTATTCTTGTTGTTTTTCAAGGAACCCGCTGTAAGTATTCGCATCCCTTCCTCCCGATTTTGGT
195 GTTATTCTTGCTATTTTTCAAGGAACCCGCTGTAAGTATTCGCATCCCTTCCTCCCGATTTCGGT
*
4128258 TTTACGTACTTGGATCGCCGGTGAGACCGTCGAGTTTTGTTTCC
260 TTTACGTACTTGGATCGCCGGTGAGACCATCGAGTTTTGTTTCC
4128302 ACTACGCCGT
Statistics
Matches: 273, Mismatches: 27, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
337 186 0.68
338 2 0.01
339 6 0.02
340 78 0.29
341 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (339 bp):
TTAGGGTAATGAATATAAAAGGGATGTGTTAGGTCTAGCAGCCATTTTAACACACACAAAATCTT
CAGTCATTTTTCTCAAAAACAGTTTTGGGAAAACAAATATTGCTCTAAATCAGGTGAACTGAATA
GAGGCCGAGACATGATTTCGTAGAGGCTTATAATTCGAATCGATCGACACCACCATTATTCGATG
TTATTCTTGCTATTTTTCAAGGAACCCGCTGTAAGTATTCGCATCCCTTCCTCCCGATTTCGGTT
TTACGTACTTGGATCGCCGGTGAGACCATCGAGTTTTGTTTCCGTTGTGCCATGGAGTGCGTCGA
CTGTCCCAACGATG
Found at i:4137039 original size:2 final size:2
Alignment explanation
Indices: 4137032--4137056 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4137022 AAATCTTAGC
4137032 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4137057 ATCTTCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4137201 original size:17 final size:17
Alignment explanation
Indices: 4137179--4137212 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4137169 GATCGTTTAA
*
4137179 ATATTAAAATTTATTTT
1 ATATTAAAATATATTTT
*
4137196 ATATTAATATATATTTT
1 ATATTAAAATATATTTT
4137213 TCATAATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATTAAAATATATTTT
Found at i:4139179 original size:76 final size:75
Alignment explanation
Indices: 4139078--4139272 Score: 327
Period size: 76 Copynumber: 2.6 Consensus size: 75
4139068 TTTAAATATC
* *
4139078 ATATTTTATTTTTGTTTTAGATATTTTAGTTTAAATAGATTTTAGTATTTTAATTAAGTTTTAGG
1 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAG-TTTTAGTATTTTAATTAAGTTTTAGG
4139143 ATATTATTTTT
65 ATATTATTTTT
*
4139154 ATATTTTATCTTTCTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTAGG
1 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-GTTTTAGTATTTTAATTAAGTTTTAGG
*
4139219 ATGTTATTTTT
65 ATATTATTTTT
*
4139230 ATATTTTATCTTTGTTTTAAGTATTTTAGTTTAAATAGTTTTA
1 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTA
4139273 AGTGTTTAGT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
75 6 0.05
76 105 0.94
77 1 0.01
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.60
Consensus pattern (75 bp):
ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAGTATTTTAATTAAGTTTTAGGA
TATTATTTTT
Found at i:4139969 original size:8 final size:8
Alignment explanation
Indices: 4139935--4139981 Score: 69
Period size: 8 Copynumber: 5.8 Consensus size: 8
4139925 AAAACCCCTT
4139935 TTATCTTTA
1 TTAT-TTTA
4139944 TTATTATTA
1 TTATT-TTA
4139953 TTA-TTTA
1 TTATTTTA
4139960 TTATTTTA
1 TTATTTTA
4139968 TTATTTTA
1 TTATTTTA
4139976 TTATTT
1 TTATTT
4139982 CCCTTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
7 6 0.17
8 20 0.56
9 10 0.28
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (8 bp):
TTATTTTA
Found at i:4139991 original size:20 final size:20
Alignment explanation
Indices: 4139933--4140017 Score: 66
Period size: 16 Copynumber: 4.7 Consensus size: 20
4139923 TTAAAACCCC
4139933 TTTTATCTTTATTATTAT-TA
1 TTTTAT-TTTATTATTATCTA
4139953 --TTA-TTTATTATT-T-TA
1 TTTTATTTTATTATTATCTA
4139968 --TTATTTTATTATT-TCCCT-
1 TTTTATTTTATTATTAT--CTA
4139986 TTTTA-TTTATTATTATCTA
1 TTTTATTTTATTATTATCTA
4140005 TTTTATTTTATTA
1 TTTTATTTTATTA
4140018 AATCATTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 18
0.76 0.00 0.24
Matches are distributed among these distances:
15 6 0.11
16 19 0.34
18 5 0.09
19 15 0.27
20 11 0.20
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTATTTTATTATTATCTA
Found at i:4140000 original size:3 final size:3
Alignment explanation
Indices: 4139941--4139980 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
4139931 CCTTTTATCT
4139941 TTA TTA TTA TTA TTA TTTA TTA TT- TTA TTA TT- TTA TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
4139981 TCCCTTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 27 0.79
4 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:4140575 original size:78 final size:78
Alignment explanation
Indices: 4140477--4140627 Score: 293
Period size: 78 Copynumber: 1.9 Consensus size: 78
4140467 ACCTATCACT
*
4140477 CAGAACTCATTCATCTTCTTCCCACTTTCCACGGCTTTCTCACTGAAAATTCGTACAAACACTTG
1 CAGAACTCATTCATCTTCTTCCCACTTTCCACAGCTTTCTCACTGAAAATTCGTACAAACACTTG
4140542 TTGGAATTAAAGA
66 TTGGAATTAAAGA
4140555 CAGAACTCATTCATCTTCTTCCCACTTTCCACAGCTTTCTCACTGAAAATTCGTACAAACACTTG
1 CAGAACTCATTCATCTTCTTCCCACTTTCCACAGCTTTCTCACTGAAAATTCGTACAAACACTTG
4140620 TTGGAATT
66 TTGGAATT
4140628 CCACATGGTT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (78 bp):
CAGAACTCATTCATCTTCTTCCCACTTTCCACAGCTTTCTCACTGAAAATTCGTACAAACACTTG
TTGGAATTAAAGA
Found at i:4145317 original size:5 final size:5
Alignment explanation
Indices: 4145307--4145352 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
4145297 TCGTTCTATT
* *
4145307 TTTTA TTTTA TTTCA TTTTA TTTTCG TTTTA TTTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA -TTTTA TTTTA TTTT
4145353 TCAGCAAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
5 26 0.74
6 9 0.26
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:4145328 original size:22 final size:22
Alignment explanation
Indices: 4145294--4145355 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
4145284 AAGGCAACCC
* * *
4145294 ATTTCGTTCTATTTTTTATTTT
1 ATTTCATTTTATTTTTCATTTT
*
4145316 ATTTCATTTTA-TTTTCGTTTT
1 ATTTCATTTTATTTTTCATTTT
*
4145337 ATTTTTATTTTATTTTTCA
1 A-TTTCATTTTATTTTTCA
4145356 GCAAACTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 9 0.28
22 18 0.56
23 5 0.16
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (22 bp):
ATTTCATTTTATTTTTCATTTT
Found at i:4145353 original size:11 final size:11
Alignment explanation
Indices: 4145306--4145353 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
4145296 TTCGTTCTAT
4145306 TTTTTATTTTA
1 TTTTTATTTTA
*
4145317 -TTTCATTTTA
1 TTTTTATTTTA
**
4145327 TTTTCGTTTTA
1 TTTTTATTTTA
4145338 TTTTTATTTTA
1 TTTTTATTTTA
4145349 TTTTT
1 TTTTT
4145354 CAGCAAACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 9 0.28
11 23 0.72
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:4145390 original size:5 final size:5
Alignment explanation
Indices: 4145380--4145409 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
4145370 CATTCTATAA
*
4145380 ATTTT ATTTT AATTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
4145410 TCTCTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:4147485 original size:76 final size:75
Alignment explanation
Indices: 4147377--4147659 Score: 444
Period size: 76 Copynumber: 3.7 Consensus size: 75
4147367 TTTAAATATC
* *
4147377 ATATTTTATCTTTGTTTTAGTTATTTTAGTTTAAATAGATTTTAGTAATTTAATTAATTTTTAGG
1 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGATTTTAGTATTTTAATTAA-TTTTAGG
4147442 ATATTATTTTT
65 ATATTATTTTT
* *
4147453 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGATTTTAGTATTTTAAATAAGTTTTCGG
1 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGATTTTAGTATTTTAATTAA-TTTTAGG
4147518 ATATTATTTTT
65 ATATTATTTTT
* *
4147529 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-AGTTTTAGTATTTTAATTAAGTTTAAG
1 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGA-TTTTAGTATTTTAATTAATTTTAGG
4147593 ATATTATTTTT
65 ATATTATTTTT
* *
4147604 ATATTTTATCTTTGTTTTAAGTATTTTAGTTTAAATAG-TTTTAAGTGTTTTAATTA
1 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGATTTT-AGTATTTTAATTA
4147660 GGATTTAAGA
Statistics
Matches: 193, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
74 4 0.02
75 64 0.33
76 125 0.65
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.59
Consensus pattern (75 bp):
ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGATTTTAGTATTTTAATTAATTTTAGGA
TATTATTTTT
Found at i:4147502 original size:44 final size:42
Alignment explanation
Indices: 4147449--4147580 Score: 113
Period size: 44 Copynumber: 3.3 Consensus size: 42
4147439 AGGATATTAT
4147449 TTTTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGA
1 TTTTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-A
** ** *
4147492 TTTTAGTATTTTAAATAAGTTTTCGG-A---TA--TT--AT--
1 TTTTA-TATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAA
4147525 TTTTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAA
1 TTTTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAA
4147567 GTTTTAGTATTTTA
1 -TTTTA-TATTTTA
4147581 ATTAAGTTTA
Statistics
Matches: 66, Mismatches: 10, Indels: 25
0.65 0.10 0.25
Matches are distributed among these distances:
32 15 0.23
33 6 0.09
36 4 0.06
38 4 0.06
40 4 0.06
43 11 0.17
44 22 0.33
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.60
Consensus pattern (42 bp):
TTTTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAA
Found at i:4147655 original size:151 final size:152
Alignment explanation
Indices: 4147377--4147656 Score: 467
Period size: 151 Copynumber: 1.8 Consensus size: 152
4147367 TTTAAATATC
* * *
4147377 ATATTTTATCTTTGTTTTAGTTATTTTAGTTTAAATAGATTTTAGTAATTTAATTAATTTTTAGG
1 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGATTTTAGTAATTTAATTAATGTTTAAG
*
4147442 ATATTATTTTTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGATTTTAGTATTTTAAA
66 ATATTATTTTTATATTTTATCTTTGTTTTAAGTATTTTAGTTTAAATAGATTTTAGTATTTTAAA
4147507 TAAGTTTTCGGATATTATTTTT
131 TAAGTTTTCGGATATTATTTTT
*
4147529 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-AGTTTTAGTATTTTAATTAA-GTTTAA
1 ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGA-TTTTAGTAATTTAATTAATGTTTAA
*
4147592 GATATTATTTTTATATTTTATCTTTGTTTTAAGTATTTTAGTTTAAATAG-TTTTAAGTGTTTTA
65 GATATTATTTTTATATTTTATCTTTGTTTTAAGTATTTTAGTTTAAATAGATTTT-AGTATTTTA
4147656 A
129 A
4147657 TTAGGATTTA
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
150 4 0.03
151 63 0.52
152 53 0.44
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.59
Consensus pattern (152 bp):
ATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATAGATTTTAGTAATTTAATTAATGTTTAAG
ATATTATTTTTATATTTTATCTTTGTTTTAAGTATTTTAGTTTAAATAGATTTTAGTATTTTAAA
TAAGTTTTCGGATATTATTTTT
Found at i:4148331 original size:16 final size:15
Alignment explanation
Indices: 4148310--4148342 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
4148300 ACCTTTTATC
4148310 TTTATTATTATTATTA
1 TTTATTATTATT-TTA
4148326 TTTATTATTATTTTA
1 TTTATTATTATTTTA
4148341 TT
1 TT
4148343 ATTTCCCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTATTATTTTA
Found at i:4148335 original size:19 final size:19
Alignment explanation
Indices: 4148311--4148377 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
4148301 CCTTTTATCT
4148311 TTATTATTATTATTATTTA
1 TTATTATTATTATTATTTA
*
4148330 TTATTATT-TTATTATTTCC
1 TTATTATTATTATTATTT-A
* *
4148349 CTATTTATTTATTATTATCTA
1 TTA-TTA-TTATTATTATTTA
4148370 TT-TTATTA
1 TTATTATTA
4148378 AATCTTTTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
18 12 0.31
19 13 0.33
20 3 0.08
21 3 0.08
22 8 0.21
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTATTATTATTATTTA
Found at i:4148365 original size:3 final size:3
Alignment explanation
Indices: 4148311--4148345 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
4148301 CCTTTTATCT
4148311 TTA TTA TTA TTA TTA TTTA TTA TTA TT- TTA TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
4148346 TCCCTATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:4148989 original size:2 final size:2
Alignment explanation
Indices: 4148982--4149020 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4148972 ATAGAATAAT
4148982 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4149021 GATTACTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4150527 original size:2 final size:2
Alignment explanation
Indices: 4150522--4150569 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
4150512 ACACACACAC
4150522 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4150564 AT AT AT
1 AT AT AT
4150570 TTATTTATTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4163577 original size:110 final size:110
Alignment explanation
Indices: 4163296--4163731 Score: 380
Period size: 110 Copynumber: 4.0 Consensus size: 110
4163286 GTAGCATACC
* * * * *
4163296 CATTTTTCGAAGATTTTTCAAATCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCG-TTTTCTG
1 CATTTTTCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAAGGAGCAGACACGTTTTTC-G
* * * * * ** * *
4163360 AAGATCGTCCAAGACCAAAACTCTTTGAAAGAAA-AAGGAACATACA
65 AAGATTGTTCAAGTCCTATACTCCCTGAAA-AAAGAGGGAACAGACA
* * * * * *
4163406 CATTTTTCGAATATTGTTTAAGTCCTATACTCCTTGAAAGAAGAAGGAGCATA-ACCCTTTTTTG
1 CATTTTTCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAAGGAGCAGACA-CGTTTTTCG
* * * *
4163470 AAGATTTTTTAAGTCCTATACTCCCTGAAAAAAGAGGGAGCAGACC
65 AAGATTGTTCAAGTCCTATACTCCCTGAAAAAAGAGGGAACAGACA
* * *
4163516 CATTTTTCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAATAAGGAGCAGACATGTTTTTCGA
1 CATTTTTCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAAGGAGCAGACACGTTTTTCGA
* * *
4163581 AGATTGCTT-AAGGCGTATACTCCCT-AAAAGAAGAGGAAAC-GAACA
66 AGATTG-TTCAAGTCCTATACTCCCTGAAAA-AAGAGGGAACAG-ACA
* * * * * * * * * * *
4163626 CGTTTGTCAAAGATTGTTCGAGTCCTATACTCCCTGAACGAATAGGGAACATACATGTTTGTTCA
1 CATTTTTCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAAGGAGCAGACACGTTT-TTCG
* *
4163691 AAGATTGATCAAGTCCTATACTCCCTGAAATAAGAGGGAAC
65 AAGATTGTTCAAGTCCTATACTCCCTGAAAAAAGAGGGAAC
4163732 GGGCCCGTTT
Statistics
Matches: 264, Mismatches: 52, Indels: 19
0.79 0.16 0.06
Matches are distributed among these distances:
109 8 0.03
110 213 0.81
111 40 0.15
112 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (110 bp):
CATTTTTCGAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAAGGAGCAGACACGTTTTTCGA
AGATTGTTCAAGTCCTATACTCCCTGAAAAAAGAGGGAACAGACA
Found at i:4163579 original size:165 final size:165
Alignment explanation
Indices: 4163288--4163614 Score: 415
Period size: 165 Copynumber: 2.0 Consensus size: 165
4163278 TGAATAGTGT
* *
4163288 AGCATACCCATTTTTCGAAGATTTTTCAAATCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCG
1 AGCATACCCATTTTTCGAAGATTTTTCAAATCCTATACTCCCTGAAAAAAGAGGGAGCAGACCCG
* * *
4163353 TTTTCTGAAGATCGTCCAAGACCAAAACTCTTTGAAAGAAAAAGGAACATACACATTTTTCGAAT
66 TTTTCTGAAGATCGTCCAAGACCAAAACTCCTTGAAAGAAAAAGGAACAGACACATTTTTCGAAG
* * * *
4163418 ATTGTTTAAGTCCTATACTCCTTGAAAGAAGAAGG
131 ATTGCTTAAGGCCTATACTCCCTAAAAGAAGAAGG
* * *
4163453 AGCATAACCC-TTTTTTGAAGATTTTTTAAGTCCTATACTCCCTGAAAAAAGAGGGAGCAGACCC
1 AGCAT-ACCCATTTTTCGAAGATTTTTCAAATCCTATACTCCCTGAAAAAAGAGGGAGCAGACCC
* * * * * * * * **
4163517 ATTTT-TCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAATAAGGAGCAGACATGTTTTTCGA
65 GTTTTCT-GAAGATCGTCCAAGACCAAAACTCCTTGAAAGAAAAAGGAACAGACACATTTTTCGA
*
4163581 AGATTGCTTAAGGCGTATACTCCCTAAAAGAAGA
129 AGATTGCTTAAGGCCTATACTCCCTAAAAGAAGA
4163615 GGAAACGAAC
Statistics
Matches: 137, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
164 1 0.01
165 132 0.96
166 4 0.03
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (165 bp):
AGCATACCCATTTTTCGAAGATTTTTCAAATCCTATACTCCCTGAAAAAAGAGGGAGCAGACCCG
TTTTCTGAAGATCGTCCAAGACCAAAACTCCTTGAAAGAAAAAGGAACAGACACATTTTTCGAAG
ATTGCTTAAGGCCTATACTCCCTAAAAGAAGAAGG
Found at i:4163652 original size:165 final size:164
Alignment explanation
Indices: 4163305--4163720 Score: 404
Period size: 165 Copynumber: 2.5 Consensus size: 164
4163295 CCATTTTTCG
* * * * * *
4163305 AAGATTTTTCAAATCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCGTTTTCTGAAGATCGTCC
1 AAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCTTTTTC-GAAGATTGTTC
* * * * * * * *
4163370 AAGACCAAAACTCTTTGAAAGAAAAAGGAACATACACATTTTTCGAATATTGTTTAAGTCCTATA
65 AAGTCCTATACTCCTTGAAAGAAAAAGGAACAGACACATTTTTCGAAGATTGCTTAAGGCCTATA
* * * * * **
4163435 CTCCTTGAAAGAAGAAGGAGCATAACCCTTTTTTG
130 CTCCCTAAAAGAAGAAGGAACAGAACCCTTTGTCA
* * *
4163470 AAGATTTTTTAAGTCCTATACTCCCTGAAAAAAGAGGGAGCAGACCCATTTTTCGAAGATTGTTC
1 AAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCC-TTTTTCGAAGATTGTTC
* * ** *
4163535 AAGTCCTATACTCCTTGAAAGAATAAGGAGCAGACATGTTTTTCGAAGATTGCTTAAGGCGTATA
65 AAGTCCTATACTCCTTGAAAGAAAAAGGAACAGACACATTTTTCGAAGATTGCTTAAGGCCTATA
*
4163600 CTCCCTAAAAGAAG-AGGAA-ACGAACACGTTTGTCA
130 CTCCCTAAAAGAAGAAGGAACA-GAAC-CCTTTGTCA
* * * * * ** * *
4163635 AAGATTGTTCGAGTCCTATACTCCCTGAACGAATAGGGAACATACATGTTTGTTCAAAGATTGAT
1 AAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGAC-CCTTT-TTCGAAGATTGTT
*
4163700 CAAGTCCTATACTCCCTGAAA
64 CAAGTCCTATACTCCTTGAAA
4163721 TAAGAGGGAA
Statistics
Matches: 205, Mismatches: 41, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
163 1 0.00
164 7 0.03
165 161 0.79
166 36 0.18
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (164 bp):
AAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCTTTTTCGAAGATTGTTCA
AGTCCTATACTCCTTGAAAGAAAAAGGAACAGACACATTTTTCGAAGATTGCTTAAGGCCTATAC
TCCCTAAAAGAAGAAGGAACAGAACCCTTTGTCA
Found at i:4163707 original size:56 final size:55
Alignment explanation
Indices: 4163298--4163760 Score: 322
Period size: 55 Copynumber: 8.4 Consensus size: 55
4163288 AGCATACCCA
* * * * * *
4163298 TTTTTCGAAGATTTTTCAAATCCTATACTCCCTGAAAGAAGAGGGAGCGGACCCG
1 TTTTTCAAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAACAGACACG
* * * * * * ** * * * *
4163353 -TTTTCTGAAGATCGTCCAAGACCAAAACTCTTTGAAAGAAAAAGGAACATACACA
1 TTTTTC-AAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAACAGACACG
* * * * * * * *
4163408 TTTTTCGAATATTGTTTAAGTCCTATACTCCTTGAAAGAAGAAGGAGCATA-ACCC
1 TTTTTCAAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAACAGACA-CG
** * * * * * *
4163463 TTTTTTGAAGATTTTTTAAGTCCTATACTCCCTGAAAAAAGAGGGAGCAGACCCA
1 TTTTTCAAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAACAGACACG
* * * * * *
4163518 TTTTTCGAAGATTGTTCAAGTCCTATACTCCTTGAAAGAATAAGGAGCAGACATG
1 TTTTTCAAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAACAGACACG
* * * * *
4163573 TTTTTCGAAGATTGCTT-AAGGCGTATACTCCCTAAAAGAAGAGGAAAC-GAACACG
1 TTTTTCAAAGATTG-TTCAAGTCCTATACTCCCTGAAAGAAGAGGGAACAG-ACACG
* * * * * *
4163628 TTTGTCAAAGATTGTTCGAGTCCTATACTCCCTGAACGAATAGGGAACATACATG
1 TTTTTCAAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAACAGACACG
* * * * *
4163683 TTTGTTCAAAGATTGATCAAGTCCTATACTCCCTGAAATAAGAGGGAACGGGCCCG
1 TTT-TTCAAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAACAGACACG
* * *
4163739 TTTTCCAAAGATTTTTTAAGTC
1 TTTTTCAAAGATTGTTCAAGTC
4163761 TCACTTATCC
Statistics
Matches: 318, Mismatches: 81, Indels: 18
0.76 0.19 0.04
Matches are distributed among these distances:
54 9 0.03
55 258 0.81
56 51 0.16
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (55 bp):
TTTTTCAAAGATTGTTCAAGTCCTATACTCCCTGAAAGAAGAGGGAACAGACACG
Found at i:4165744 original size:4 final size:4
Alignment explanation
Indices: 4165735--4165773 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
4165725 AGATATAAAT
*
4165735 TTTA TTTA TTTA TTTA TTTA ATTA TTTA TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
4165774 AACAAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:4171251 original size:112 final size:112
Alignment explanation
Indices: 4171050--4171253 Score: 309
Period size: 112 Copynumber: 1.8 Consensus size: 112
4171040 CTGTGATGGA
* * * *
4171050 TTCGAATGAAATGGTGATACTGATCTAACTCCTTGTGTGATGGAATCAAACGGAGGTTGAGCAAG
1 TTCGAACGAAATGGTGATACTGATCCAACTCCTTATGTGATGGAATCAAACGAAGGTTGAGCAAG
4171115 TTCTTCCCATTATGAACTTCTTCTCTTGGAAATGCTTATCCAACTCC
66 TTCTTCCCATTATGAACTTCTTCTCTTGGAAATGCTTATCCAACTCC
* * * * *
4171162 TTCGAACGAAGTGGTGATGCTGATCCAACTTCTTATGTGATGGAATCGAGCGAAGGTTGAGCAAG
1 TTCGAACGAAATGGTGATACTGATCCAACTCCTTATGTGATGGAATCAAACGAAGGTTGAGCAAG
* *
4171227 TTCTTCTCATTATGAACTTGTTCTCTT
66 TTCTTCCCATTATGAACTTCTTCTCTT
4171254 CAAAAACTTA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
112 81 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (112 bp):
TTCGAACGAAATGGTGATACTGATCCAACTCCTTATGTGATGGAATCAAACGAAGGTTGAGCAAG
TTCTTCCCATTATGAACTTCTTCTCTTGGAAATGCTTATCCAACTCC
Found at i:4172169 original size:8 final size:8
Alignment explanation
Indices: 4172156--4172184 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
4172146 CAATTCTCAA
4172156 TTTTTTCT
1 TTTTTTCT
4172164 TTTTTTCT
1 TTTTTTCT
4172172 TTTTTTCT
1 TTTTTTCT
4172180 TTTTT
1 TTTTT
4172185 AAGTGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTCT
Found at i:4181146 original size:77 final size:77
Alignment explanation
Indices: 4181019--4181172 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
4181009 GAGTGAGACA
4181019 CGCCAGATAGGCGGCCATGACGTAGGCAACAGGACGGGGTAAAAATGATTTTACCCTAAGTTAAC
1 CGCCAGATAGGCGGCCATGACGTAGGCAACAGGACGGGGTAAAAATGATTTTACCCTAAGTTAAC
4181084 TCTTCATCATTT
66 TCTTCATCATTT
4181096 CGCCAGATAGGCGGCCATGACGTAGGCAACAGGACGGGGTAAAAATGATTTTACCCTAAGTTAAC
1 CGCCAGATAGGCGGCCATGACGTAGGCAACAGGACGGGGTAAAAATGATTTTACCCTAAGTTAAC
4181161 TCTTCATCATTT
66 TCTTCATCATTT
4181173 TTGGGGTGAC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (77 bp):
CGCCAGATAGGCGGCCATGACGTAGGCAACAGGACGGGGTAAAAATGATTTTACCCTAAGTTAAC
TCTTCATCATTT
Found at i:4181523 original size:3 final size:3
Alignment explanation
Indices: 4181509--4181553 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
4181499 TCATTTAGTC
* *
4181509 ATA ATG ATA ATA ATA ATA ATA ATA ATA A-A ATA GTA ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
4181554 TGGCTAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4187885 original size:27 final size:27
Alignment explanation
Indices: 4187854--4187909 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
4187844 ATCAAGGTCA
4187854 TTATAAAATTGTATGAGGAATGGGGTG
1 TTATAAAATTGTATGAGGAATGGGGTG
4187881 TTATAAAATTGTATGAGGAATGGGGTG
1 TTATAAAATTGTATGAGGAATGGGGTG
4187908 TT
1 TT
4187910 TGAACTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (27 bp):
TTATAAAATTGTATGAGGAATGGGGTG
Found at i:4188613 original size:28 final size:28
Alignment explanation
Indices: 4188562--4188620 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
4188552 GTTACAGTTG
*
4188562 TTATATCACAACAGATTAATTTCAA-AA
1 TTATATCACAACAGAATAATTTCAATAA
4188589 TTATATCATTCAACA-AATAATTTCAATAA
1 TTATATCA--CAACAGAATAATTTCAATAA
4188618 TTA
1 TTA
4188621 ACAGATAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 8 0.29
28 10 0.36
29 10 0.36
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (28 bp):
TTATATCACAACAGAATAATTTCAATAA
Found at i:4188709 original size:14 final size:15
Alignment explanation
Indices: 4188675--4188704 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4188665 TTTCCATTTC
*
4188675 AATTTTATAAAAAAT
1 AATTTTAAAAAAAAT
4188690 AATTTTAAAAAAAAT
1 AATTTTAAAAAAAAT
4188705 CTTTTGTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTTTAAAAAAAAT
Found at i:4189848 original size:51 final size:50
Alignment explanation
Indices: 4189728--4189858 Score: 191
Period size: 45 Copynumber: 2.7 Consensus size: 50
4189718 CAAGTCTACT
*
4189728 GGATCTCATATTAATTTTAAGTGTTTAAGGTATATGAATATGAATTTTATA
1 GGATCTCATATTAA-TTTAAGTGTTTAAGGTATATGAATATAAATTTTATA
*
4189779 GAATCTC--A-T-A-TTAAGTGTTTAAGGTATATGAATATAAATTTTATA
1 GGATCTCATATTAATTTAAGTGTTTAAGGTATATGAATATAAATTTTATA
4189824 GGATCTCATATTAACTTTAAGTGTTTAAGGTATAT
1 GGATCTCATATTAA-TTTAAGTGTTTAAGGTATAT
4189859 TAATTTTTTT
Statistics
Matches: 71, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
45 40 0.56
47 2 0.03
48 2 0.03
49 2 0.03
51 25 0.35
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (50 bp):
GGATCTCATATTAATTTAAGTGTTTAAGGTATATGAATATAAATTTTATA
Found at i:4192302 original size:33 final size:33
Alignment explanation
Indices: 4192259--4192333 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
4192249 AAGAAAGGAG
*
4192259 GTGGTGAAAAGAACAAGGGAGGTAAAAATGATA
1 GTGGTTAAAAGAACAAGGGAGGTAAAAATGATA
*
4192292 GTGGTTAAAAGAACAAGGGAGGTAAAAATGGTA
1 GTGGTTAAAAGAACAAGGGAGGTAAAAATGATA
4192325 GTGG-TAAAA
1 GTGGTTAAAA
4192334 CGGTGGATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 5 0.12
33 35 0.88
ACGTcount: A:0.47, C:0.03, G:0.33, T:0.17
Consensus pattern (33 bp):
GTGGTTAAAAGAACAAGGGAGGTAAAAATGATA
Found at i:4192616 original size:9 final size:9
Alignment explanation
Indices: 4192602--4192633 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
4192592 TAAGAAGAAC
4192602 ATGGGGCAG
1 ATGGGGCAG
4192611 ATGGGGCAG
1 ATGGGGCAG
*
4192620 ATGGGGCAA
1 ATGGGGCAG
4192629 ATGGG
1 ATGGG
4192634 CGGTCCGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.25, C:0.09, G:0.53, T:0.12
Consensus pattern (9 bp):
ATGGGGCAG
Found at i:4192665 original size:21 final size:20
Alignment explanation
Indices: 4192615--4192667 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
4192605 GGGCAGATGG
*
4192615 GGCAGATGGGGCAAATGGGC
1 GGCAGATGGGTCAAATGGGC
*
4192635 GGTCCGATGGGTCAAATGGGC
1 GG-CAGATGGGTCAAATGGGC
*
4192656 TGGCAAATGGGT
1 -GGCAGATGGGT
4192668 TATAATATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.07
21 23 0.85
22 2 0.07
ACGTcount: A:0.23, C:0.15, G:0.45, T:0.17
Consensus pattern (20 bp):
GGCAGATGGGTCAAATGGGC
Found at i:4194426 original size:246 final size:252
Alignment explanation
Indices: 4194119--4194617 Score: 956
Period size: 246 Copynumber: 2.0 Consensus size: 252
4194109 TTCCGGCCGA
4194119 TTCACTAGTAGCGGTTCAACCGGTGTAGATTGAACCGGACTAGACAGCGGTTCCCGGTTGAACTG
1 TTCACTAGTAGCGGTTCAACCGGTGTAGATTGAACCGGACTAGACAGCGGTTCCCGGTTGAACTG
4194184 GTTGAACCGACCGGACCTGTCCGGTTTTCAAAACACTGCTCCCATGC-TTCC-TTTGAAAGTGAA
66 GTTGAACCGACCGGACCTGTCCGGTTTTCAAAACACTGCTCCCATGCTTTCCTTTTGAAAGTGAA
4194247 -GC-TTTATTCTTGTTGCTTGCTTGCTTGCTGTTTCTTTTGTCCTGCGTTTATCGCTATTTTCTC
131 TGCTTTTATTCTTGTTGCTTGCTTGCTTGCTGTTTCTTTTGTCCTGCGTTTATCGCTATTTTCTC
4194310 -AAAAGAAAAGACCTTAGTCTCCGATGAAAAGAAAGAGATTGTTATTG-TTGGATTT
196 AAAAAGAAAAGACCTTAGTCTCCGATGAAAAGAAAGAGATTGTTATTGTTTGGATTT
4194365 TTCACTAGTAGCGGTTCAACCGGTGTAGATTGAACCGGACTAGACAGCGGTTCCCGGTTGAACTG
1 TTCACTAGTAGCGGTTCAACCGGTGTAGATTGAACCGGACTAGACAGCGGTTCCCGGTTGAACTG
4194430 GTTGAACCGACCGGACCTGTCCGGTTTTCAAAACACTGCTCCCATGCTTTCCTTTTGAAAGTGAA
66 GTTGAACCGACCGGACCTGTCCGGTTTTCAAAACACTGCTCCCATGCTTTCCTTTTGAAAGTGAA
4194495 TGCTTTTATTCTTGTTGCTTGCTTGCTTGCTGTTTCTTTTGTCCTGCGTTTATCGCTATTTTCTC
131 TGCTTTTATTCTTGTTGCTTGCTTGCTTGCTGTTTCTTTTGTCCTGCGTTTATCGCTATTTTCTC
4194560 AAAAAGAAAAGACCTTAGTCTCCGATGAAAAGAAAGAGATTGTTATTGTTTGGATTT
196 AAAAAGAAAAGACCTTAGTCTCCGATGAAAAGAAAGAGATTGTTATTGTTTGGATTT
4194617 T
1 T
4194618 AACCACTACA
Statistics
Matches: 247, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
246 112 0.45
247 4 0.02
248 12 0.05
249 2 0.01
250 61 0.25
251 47 0.19
252 9 0.04
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (252 bp):
TTCACTAGTAGCGGTTCAACCGGTGTAGATTGAACCGGACTAGACAGCGGTTCCCGGTTGAACTG
GTTGAACCGACCGGACCTGTCCGGTTTTCAAAACACTGCTCCCATGCTTTCCTTTTGAAAGTGAA
TGCTTTTATTCTTGTTGCTTGCTTGCTTGCTGTTTCTTTTGTCCTGCGTTTATCGCTATTTTCTC
AAAAAGAAAAGACCTTAGTCTCCGATGAAAAGAAAGAGATTGTTATTGTTTGGATTT
Found at i:4199597 original size:96 final size:96
Alignment explanation
Indices: 4199484--4199675 Score: 384
Period size: 96 Copynumber: 2.0 Consensus size: 96
4199474 CAGTATCCAA
4199484 CAACCTAGATAGCACATTCATCATCATGACAAACAATTAGGGTGATAGAGGATCCCTTACCTCAC
1 CAACCTAGATAGCACATTCATCATCATGACAAACAATTAGGGTGATAGAGGATCCCTTACCTCAC
4199549 CCCCTCTTTCCACTAAAATACCTCACCAAGC
66 CCCCTCTTTCCACTAAAATACCTCACCAAGC
4199580 CAACCTAGATAGCACATTCATCATCATGACAAACAATTAGGGTGATAGAGGATCCCTTACCTCAC
1 CAACCTAGATAGCACATTCATCATCATGACAAACAATTAGGGTGATAGAGGATCCCTTACCTCAC
4199645 CCCCTCTTTCCACTAAAATACCTCACCAAGC
66 CCCCTCTTTCCACTAAAATACCTCACCAAGC
4199676 TGTCATTAAA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.33, C:0.32, G:0.11, T:0.23
Consensus pattern (96 bp):
CAACCTAGATAGCACATTCATCATCATGACAAACAATTAGGGTGATAGAGGATCCCTTACCTCAC
CCCCTCTTTCCACTAAAATACCTCACCAAGC
Found at i:4199736 original size:11 final size:11
Alignment explanation
Indices: 4199720--4199749 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4199710 GAAATCCCTC
*
4199720 AAGCAATCCCA
1 AAGCAACCCCA
4199731 AAGCAACCCCA
1 AAGCAACCCCA
4199742 AAGCAACC
1 AAGCAACC
4199750 AAAACATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.47, C:0.40, G:0.10, T:0.03
Consensus pattern (11 bp):
AAGCAACCCCA
Found at i:4202837 original size:21 final size:20
Alignment explanation
Indices: 4202809--4202850 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
4202799 CATTGCAGGA
* *
4202809 ATTTATGGCTTCGACAAAAG
1 ATTTATGGCCTCCACAAAAG
4202829 ATTTCATGGCCTCCACAAAAG
1 ATTT-ATGGCCTCCACAAAAG
4202850 A
1 A
4202851 CCTTGATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (20 bp):
ATTTATGGCCTCCACAAAAG
Found at i:4204818 original size:15 final size:16
Alignment explanation
Indices: 4204785--4204861 Score: 52
Period size: 16 Copynumber: 4.7 Consensus size: 16
4204775 TGTCAGAGGG
*
4204785 AAAAATGAATAAATGA
1 AAAAATGAATAAATAA
*
4204801 AAAAATGAA-GAATAA
1 AAAAATGAATAAATAA
*
4204816 AAATAAGTAAAATAAATAA
1 AAA-AA-T-GAATAAATAA
4204835 AAGGAAA--AATAAATAA
1 AA--AAATGAATAAATAA
*
4204851 ATAAATGAATA
1 AAAAATGAATA
4204862 TATATATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
14 3 0.06
15 7 0.15
16 25 0.52
17 1 0.02
18 2 0.04
19 7 0.15
20 2 0.04
21 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.18
Consensus pattern (16 bp):
AAAAATGAATAAATAA
Found at i:4204820 original size:25 final size:25
Alignment explanation
Indices: 4204792--4204859 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
4204782 GGGAAAAATG
*
4204792 AATAAATGAAA-AAATGAAGAA-TAAA
1 AATAAAT-AAATAAATGAA-AAGGAAA
*
4204817 AATAAGTAAAATAAAT-AAAAGGAAA
1 AATAAAT-AAATAAATGAAAAGGAAA
4204842 AATAAATAAATAAATGAA
1 AATAAATAAATAAATGAA
4204860 TATATATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
24 10 0.28
25 22 0.61
26 4 0.11
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (25 bp):
AATAAATAAATAAATGAAAAGGAAA
Found at i:4204866 original size:2 final size:2
Alignment explanation
Indices: 4204859--4204885 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4204849 AAATAAATGA
4204859 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4204886 AATGAGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4204950 original size:18 final size:19
Alignment explanation
Indices: 4204915--4204992 Score: 58
Period size: 18 Copynumber: 4.2 Consensus size: 19
4204905 TAATCAAACA
*
4204915 ATAATAATAATATGAAAAT
1 ATAATAATAATATAAAAAT
4204934 ATAAT-ATAATATAAAAA-
1 ATAATAATAATATAAAAAT
* * *
4204951 A-AA-AA-AAAAAAAAAAA
1 ATAATAATAATATAAAAAT
4204967 ATAATAAATAATATAACCAAAT
1 ATAAT-AATAATATAA--AAAT
4204989 ATAA
1 ATAA
4204993 AAGTATACAT
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
15 8 0.18
16 4 0.09
17 3 0.07
18 11 0.24
19 7 0.16
20 5 0.11
22 7 0.16
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (19 bp):
ATAATAATAATATAAAAAT
Found at i:4205174 original size:19 final size:19
Alignment explanation
Indices: 4205152--4205233 Score: 56
Period size: 19 Copynumber: 4.0 Consensus size: 19
4205142 AAAATAGTAT
4205152 ATATATATATAAATAATAA
1 ATATATATATAAATAATAA
* *
4205171 ATATAGTATTAAAAAATAACCAA
1 ATATA-TA-T-ATAAATAA-TAA
* *
4205194 ATGAATATAAATAAATAAAAA
1 AT--ATATATATAAATAATAA
* *
4205215 ATATATGTATAGATAATAA
1 ATATATATATAAATAATAA
4205234 TAATAAATAG
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
19 18 0.38
20 2 0.04
21 5 0.10
22 14 0.29
23 4 0.08
24 2 0.04
25 3 0.06
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (19 bp):
ATATATATATAAATAATAA
Found at i:4205770 original size:37 final size:37
Alignment explanation
Indices: 4205695--4205798 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
4205685 GTGCTTGTGG
* * * *
4205695 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
*
4205732 ATCCTATTTTTAGGAGTTTGAATCCTA-TCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGT-AAAACTCT
* * *
4205769 ATCATATTTTAAAGAGTTTGAATCCTAGTA
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
4205799 GGACGAAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
36 1 0.02
37 55 0.96
38 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
Found at i:4206055 original size:22 final size:22
Alignment explanation
Indices: 4206029--4206077 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
4206019 CAGCACGTGG
4206029 CTTCTCGTTGCCCTTCGGTCTT
1 CTTCTCGTTGCCCTTCGGTCTT
4206051 CTTCTCGTTGCCCTTCGGTCTT
1 CTTCTCGTTGCCCTTCGGTCTT
4206073 CTTCT
1 CTTCT
4206078 TGGTTTAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.00, C:0.37, G:0.16, T:0.47
Consensus pattern (22 bp):
CTTCTCGTTGCCCTTCGGTCTT
Found at i:4206741 original size:106 final size:106
Alignment explanation
Indices: 4206549--4207607 Score: 1506
Period size: 106 Copynumber: 10.0 Consensus size: 106
4206539 GCATTGTTCT
* ** * * *
4206549 GAGTCCAATATCC-TCTG-TCGTGAAGTTGAAATTGGCTCTGGAACCGAGAAATTATTTGTTGAT
1 GAGTCCAATATCCTTC-GCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGAC
* * * * * * *
4206612 AACCAGCCGTCCCTTTGTTGTGAACTTGAACTTGTGTTCTCTC
64 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
4206655 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
4206720 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
4206761 GAGTCC-A-ATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAG-AAGTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
4206823 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
4206864 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTAAAATTGGGGAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
4206929 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
4206970 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
4207035 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * * *
4207076 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTATGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
4207141 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
4207182 GAGTCCAATATCCTTCGTTGTGAAGTTG-AATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
4207246 CCAGCTGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
4207287 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAAGTTGTTTATTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TTGTTTGTTGACA
* * * *
4207351 ACCAGCGGTCTCTTCATCGTGAAGTTGAACTTGTGTTGTTTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
4207393 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGATCTGAAATTGGTAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
4207458 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * * *
4207499 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAACTCCGAAATTGGAAAATT-ATTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
4207563 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
4207604 GAGT
1 GAGT
4207608 GGCACGATAT
Statistics
Matches: 868, Mismatches: 76, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
103 59 0.07
104 37 0.04
105 191 0.22
106 574 0.66
107 7 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:4207311 original size:317 final size:318
Alignment explanation
Indices: 4206549--4207607 Score: 1571
Period size: 317 Copynumber: 3.3 Consensus size: 318
4206539 GCATTGTTCT
* * * ** * *
4206549 GAGTCCAATATCC-TCTGTCGTGAAGTTGAAATTGGCTCTGGAACCGAGAAATTATTTGTTGATA
1 GAGTCCAATATCCTTC-GTTGTGAAGTTGAAATTAGCTCTGAAATTGAGAAATTGTTTGTTGACA
* * * * * * *
4206613 ACCAGCCGTCCCTTTGTTGTGAACTTGAACTTGTGTTCTCTCGAGTCCAATATCCTTCGCTGTGA
65 ACCAGCTGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGA
*
4206678 AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAACGGTCCCTTCGTCGTGAAG
130 AGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
*
4206743 TTGAACTTGCGTTGTCTGGAGTCC-A-ATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGA
195 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
*
4206806 GAAG-TGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
260 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
4206864 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTAAAATTGGGGAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGAGAAATTGTTTGTTGACAA
* *
4206929 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCTGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAA
* *
4206994 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGTGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
4207059 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTATGAAATTGAG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
*
4207124 AAGTTGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
261 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
4207182 GAGTCCAATATCCTTCGTTGTGAAGTTG-AATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGAGAAATTGTTTGTTGACAA
* *
4207246 CCAGCTGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCTGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAA
* *
4207311 GTTGAAATTGGCTCTGAAATT-GGAAAGTTGTTTATTGACAACCAGCGGTCTCTTCATCGTGAAG
131 GTTGAAATTGGCTCTGAAATTGGGAAA-TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
* * * * *
4207375 TTGAACTTGTGTTGTTTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGATCTGAAATTG-
195 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
* *
4207439 GTAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
260 G-AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
4207499 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAACTCCGAAATTG-GAAAATT-ATTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGAG-AAATTGTTTGTTGACA
* *
4207562 ACCAG-TCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGT
65 ACCAGCT-GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGT
4207608 GGCACGATAT
Statistics
Matches: 674, Mismatches: 61, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
315 192 0.28
316 10 0.01
317 374 0.55
318 98 0.15
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (318 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGAGAAATTGTTTGTTGACAA
CCAGCTGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAA
GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:4207404 original size:423 final size:419
Alignment explanation
Indices: 4206548--4207607 Score: 1581
Period size: 423 Copynumber: 2.5 Consensus size: 419
4206538 AGCATTGTTC
* ** * *
4206548 TGAGTCCAATATCC-TCTG-TCGTGAAGTTGAAATTGGCTCTGGAACCGAGAAATTATTTGTTGA
1 TGAGTCCAATATCCTTC-GCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGA
* * * * * * * *
4206611 TAACCAGCCGTCCCTTTGTTGTGAACTTGAACTTGTGTTCTCTCGAGTCCAATATCCTTCGCTGT
64 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGT
* *
4206676 GAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAACGGTCCCTTCGTCGTGA
129 GAAGTTGAAATTGGCTCTGAAATT-GGAAATTGTTTGTTGACAACCAGC-GTCCCTTCGTCGTGA
4206741 AGTTGAACTTGCGTTGTCTGGAGTCCAATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGA
192 AGTTGAACTTGCGTTGTCTGGAGTCCAATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGA
*
4206806 GAAGTGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
257 GAAGTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* **
4206871 ATATCCTTCGTTGTGAAGTTGAAATTAGCTCTAAAATTGGGGAGTTGTTTATTGACAACCAACGG
322 ATATCCTTCGCTGTGAAGTTGAAATTAGCTCTAAAATTGGAAAGTTGTTTATTGACAACCAACGG
*
4206936 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
387 TCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
4206969 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* **
4207034 ACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGA
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
* *
4207099 AGTTGAAATTGGCTATGAAATTGAGAAGTTGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAG
131 AGTTGAAATTGGCTCTGAAATTG-GAAATTGTTTGTTGACAACCAGC-GTCCCTTCGTCGTGAAG
*
4207164 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG-AATTGGCTCTGAAATTGA
194 TTGAACTTGCGTTGTCTGGAGTCC-A-ATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGA
* *
4207228 GAAGTTGTTTGTTGACAACCAGCTGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
257 GAAG-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* * *
4207293 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTTATTGACAACCAGCG
321 AATATCCTTCGCTGTGAAGTTGAAATTAGCTCTAAAATTGGAAAGTTGTTTATTGACAACCAACG
* *
4207358 GTCTCTTCATCGTGAAGTTGAACTTGTGTTGT-T
386 GTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
* * * *
4207391 TGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGATCTGAAATTGGTAAATTGTTTATTGAC
1 T-GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGAC
4207456 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTG
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTG
** * * *
4207521 AAGTTGAAATTAACTCCGAAATTGGAAAATT-ATTGTTGACAACCAGTCGTCCCTTCGTTGTGAA
130 AAGTTGAAATTGGCTCTGAAATTGG-AAATTGTTTGTTGACAACCAG-CGTCCCTTCGTCGTGAA
* *
4207585 GTTGAACTTGTGTTGTCTTGAGT
193 GTTGAACTTGCGTTGTCTGGAGT
4207608 GGCACGATAT
Statistics
Matches: 580, Mismatches: 50, Indels: 17
0.90 0.08 0.03
Matches are distributed among these distances:
420 1 0.00
421 191 0.33
422 78 0.13
423 310 0.53
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (419 bp):
TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
AGTTGAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAACCAGCGTCCCTTCGTCGTGAAGTT
GAACTTGCGTTGTCTGGAGTCCAATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAG
TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
CCTTCGCTGTGAAGTTGAAATTAGCTCTAAAATTGGAAAGTTGTTTATTGACAACCAACGGTCCC
TTCATCGTGAAGTTGAACTTGCGTTGTCT
Found at i:4208299 original size:155 final size:157
Alignment explanation
Indices: 4208134--4208446 Score: 612
Period size: 155 Copynumber: 2.0 Consensus size: 157
4208124 TCTAGAGAGA
4208134 CTGTCTTGTTTGAAAAAAAAAATGTTTTTCTTTCTCTTTTATTTTCAAATTTATGAAAATATCAA
1 CTGTCTTGTTTGAAAAAAAAAATGTTTTTCTTTCTCTTTTATTTTCAAATTTATGAAAATATCAA
4208199 TTAAAAGAGTTTTG-AAAATATTTGATCCAAAGTTTTGAAAATATTGTCACTTTCACGGTTTTAC
66 TTAAAAGAGTTTTGAAAAATATTTGATCCAAAGTTTTGAAAATATTGTCACTTTCACGGTTTTAC
4208263 AATTGAGACG-ATCATAAACTAGAGTT
131 AATTGAGACGAATCATAAACTAGAGTT
4208289 CTGTCTTGTTTGAAAAAAAAAATGTTTTTCTTTCTCTTTTATTTTCAAATTTATGAAAATATCAA
1 CTGTCTTGTTTGAAAAAAAAAATGTTTTTCTTTCTCTTTTATTTTCAAATTTATGAAAATATCAA
4208354 TTAAAAGAGTTTTGAAAAATATTTGATCCAAAGTTTTGAAAATATTGTCACTTTCACGGTTTTAC
66 TTAAAAGAGTTTTGAAAAATATTTGATCCAAAGTTTTGAAAATATTGTCACTTTCACGGTTTTAC
4208419 AATTGAGACGAATCATAAACTAGAGTT
131 AATTGAGACGAATCATAAACTAGAGTT
4208446 C
1 C
4208447 ATCGGATATC
Statistics
Matches: 156, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
155 79 0.51
156 60 0.38
157 17 0.11
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (157 bp):
CTGTCTTGTTTGAAAAAAAAAATGTTTTTCTTTCTCTTTTATTTTCAAATTTATGAAAATATCAA
TTAAAAGAGTTTTGAAAAATATTTGATCCAAAGTTTTGAAAATATTGTCACTTTCACGGTTTTAC
AATTGAGACGAATCATAAACTAGAGTT
Found at i:4208614 original size:22 final size:22
Alignment explanation
Indices: 4208586--4208662 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
4208576 TTATGTTTGG
4208586 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
4208608 TAAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* *
4208630 TCATAGGTTTGGCATTTTATGC
1 TCAAAGGTTTGGCATTTGATGC
*
4208652 TCAACGGTTTG
1 TCAAAGGTTTG
4208663 ATGGGGTAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:4209353 original size:172 final size:173
Alignment explanation
Indices: 4209058--4209396 Score: 576
Period size: 172 Copynumber: 2.0 Consensus size: 173
4209048 TAAATAGGCC
* *
4209058 CAAACAAGTGTTTCAGGGTGTTGAACTAAGGATCAATTCATTCTGATGCCTTCAATCATGTCCTT
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGCCTTCAA-CA-GTCCTT
*
4209123 CTCAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
64 CTCAAAATGTCTCTCTCTTAATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
*
4209188 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGTTATTT
129 ATTATGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGTTATTT
*
4209233 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGTCTTC-A-A-TCCTTCT
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGCCTTCAACAGTCCTTCT
4209295 CAAAATGTTTCTCTCTCTTAATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
66 CAAAATG--TCTCTCTCTTAATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
4209360 ATTATGCTTGATCAATCTCATAGTTTGAAGCTTGATG
129 ATTATGCTTGATCAATCTCATAGTTTGAAGCTTGATG
4209397 CACCATTTTT
Statistics
Matches: 157, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
170 14 0.09
172 92 0.59
174 1 0.01
175 50 0.32
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (173 bp):
CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGCCTTCAACAGTCCTTCT
CAAAATGTCTCTCTCTTAATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATGAT
TATGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGTTATTT
Found at i:4212969 original size:19 final size:19
Alignment explanation
Indices: 4212936--4212972 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
4212926 TACAGATGAT
4212936 GGAAATAAAATAAAAGAGA
1 GGAAATAAAATAAAAGAGA
4212955 GGAAA-AAAATGAAAAGAG
1 GGAAATAAAAT-AAAAGAG
4212973 TTAGTAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (19 bp):
GGAAATAAAATAAAAGAGA
Found at i:4214071 original size:29 final size:32
Alignment explanation
Indices: 4214039--4214114 Score: 92
Period size: 29 Copynumber: 2.6 Consensus size: 32
4214029 TGTCAGAGGG
4214039 AAAAATAAATAAATGAAAAAAT-AAA-G-AAT
1 AAAAATAAATAAATGAAAAAATAAAATGAAAT
*
4214068 AAAAATAAGT-AA--AAAAAATAAAATGAAAT
1 AAAAATAAATAAATGAAAAAATAAAATGAAAT
*
4214097 ATAAATAAATAAATGAAA
1 AAAAATAAATAAATGAAA
4214115 TATTAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
26 7 0.18
27 3 0.08
28 3 0.08
29 20 0.53
30 2 0.05
32 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (32 bp):
AAAAATAAATAAATGAAAAAATAAAATGAAAT
Found at i:4214112 original size:19 final size:19
Alignment explanation
Indices: 4214041--4214122 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 19
4214031 TCAGAGGGAA
*
4214041 AAATAAATAAATGAAAAAAT
1 AAATAAATAAATG-AAATAT
* * *
4214061 AAAGAATAAAAAT-AAGTA-
1 AAATAA-ATAAATGAAATAT
*
4214079 AAAAAAATAAAATGAAATAT
1 AAATAAAT-AAATGAAATAT
4214099 AAATAAATAAATGAAATAT
1 AAATAAATAAATGAAATAT
*
4214118 TAATA
1 AAATA
4214123 TATATATATA
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
17 1 0.02
18 9 0.18
19 22 0.45
20 12 0.24
21 5 0.10
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (19 bp):
AAATAAATAAATGAAATAT
Found at i:4214127 original size:2 final size:2
Alignment explanation
Indices: 4214120--4214148 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4214110 TGAAATATTA
4214120 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4214149 AATGAGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4214215 original size:18 final size:18
Alignment explanation
Indices: 4214158--4214219 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
4214148 AAATGAGTAA
4214158 AATA-GAAAA-ATAATA-
1 AATATGAAAATATAATAT
* *
4214173 ATTATGACAATAATAATAGT
1 AATATGAAAAT-ATAATA-T
4214193 AATATGAAAATATAATAT
1 AATATGAAAATATAATAT
4214211 AATAT-AAAA
1 AATATGAAAA
4214220 AACTAAAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 3 0.08
16 4 0.11
17 4 0.11
18 12 0.32
19 6 0.16
20 9 0.24
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (18 bp):
AATATGAAAATATAATAT
Found at i:4214506 original size:23 final size:24
Alignment explanation
Indices: 4214475--4214523 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
4214465 ACCAAATGAA
4214475 TATAAATAAATAA-AAAATATA-TG
1 TATAAAT-AATAATAAAATATAGTG
* *
4214498 TATAGATAATAATAATATATAGTG
1 TATAAATAATAATAAAATATAGTG
4214522 TA
1 TA
4214524 AAAAAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (24 bp):
TATAAATAATAATAAAATATAGTG
Found at i:4215021 original size:37 final size:37
Alignment explanation
Indices: 4214980--4215084 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
4214970 GTGCTTGTGG
* * *
4214980 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
4215017 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
4215054 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
4215085 GACGAAAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:4224372 original size:57 final size:57
Alignment explanation
Indices: 4224295--4224417 Score: 174
Period size: 57 Copynumber: 2.2 Consensus size: 57
4224285 TATGTTGTTT
* * * * * * *
4224295 CTTCTTAGCCTTTATTTCATTTAACAGTGTATCAACTCCTAGTGAAGCTGCCCTTAC
1 CTTCTTGGCCTTCATGTCATTTAACAGTGCAGCAACTCCTAATGAAGCTGCCCTCAC
*
4224352 CTTCTTGGCCTTCATGTCATTTAACAGTGCAGCAACTCCTAATGAAGTTGCCCTCAC
1 CTTCTTGGCCTTCATGTCATTTAACAGTGCAGCAACTCCTAATGAAGCTGCCCTCAC
4224409 CTTCTTGGC
1 CTTCTTGGC
4224418 TCCCTCTATG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (57 bp):
CTTCTTGGCCTTCATGTCATTTAACAGTGCAGCAACTCCTAATGAAGCTGCCCTCAC
Found at i:4226013 original size:23 final size:23
Alignment explanation
Indices: 4225987--4226042 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
4225977 TGTTTGTTTG
* *
4225987 TTTACTGTTTATGAACATGTTCA
1 TTTAATGTTCATGAACATGTTCA
* *
4226010 TTTAATGTTCATGGACATGTTCG
1 TTTAATGTTCATGAACATGTTCA
4226033 TTTATATGTT
1 TTTA-ATGTT
4226043 TGCAAACATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.50
Consensus pattern (23 bp):
TTTAATGTTCATGAACATGTTCA
Found at i:4226553 original size:23 final size:23
Alignment explanation
Indices: 4226503--4226563 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
4226493 CTTAGTTCGC
* *
4226503 GAACATGTTCGTTTAATGTTCAA
1 GAACATGTTTGTTTAACGTTCAA
4226526 GAACATGTTTGTTTAACGTTCATA
1 GAACATGTTTGTTTAACGTTCA-A
*
4226550 -AACATATTTGTTTA
1 GAACATGTTTGTTTA
4226564 TATATTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 33 0.97
24 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (23 bp):
GAACATGTTTGTTTAACGTTCAA
Found at i:4237017 original size:21 final size:21
Alignment explanation
Indices: 4236959--4237051 Score: 66
Period size: 21 Copynumber: 4.5 Consensus size: 21
4236949 CTAGATAAAC
* * *
4236959 TGGTATCCATATCGGA-GGAC
1 TGGTATCCATATCAGATGAAT
* * *
4236979 TGCTATCCATACCTGATGAAT
1 TGGTATCCATATCAGATGAAT
* *
4237000 TGGTATCTATATCAGATGGAT
1 TGGTATCCATATCAGATGAAT
* *
4237021 TTGTATCCATATC-GAAGAA-
1 TGGTATCCATATCAGATGAAT
4237040 TGAGTATCCATA
1 TG-GTATCCATA
4237052 CCAAAGGCTT
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
19 1 0.02
20 26 0.46
21 29 0.52
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (21 bp):
TGGTATCCATATCAGATGAAT
Found at i:4239298 original size:19 final size:19
Alignment explanation
Indices: 4239274--4239318 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
4239264 TGGGCCTCAT
*
4239274 TTTATTTGTAAAATGGATA
1 TTTATTTGTAAAATAGATA
*
4239293 TTTATTTTGTAATATAGATA
1 TTTA-TTTGTAAAATAGATA
4239313 -TTATTT
1 TTTATTT
4239319 ATTAATGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 3 0.13
19 7 0.30
20 13 0.57
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (19 bp):
TTTATTTGTAAAATAGATA
Found at i:4239637 original size:6 final size:6
Alignment explanation
Indices: 4239615--4239658 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
4239605 ATTTACAAAA
* *
4239615 ACTACAT ACTAAA ACTAAT ACTAAA ACTAAT ACTAAT ACTAAT A
1 ACTA-AT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT A
4239659 TTATATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
6 29 0.88
7 4 0.12
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (6 bp):
ACTAAT
Found at i:4239637 original size:12 final size:12
Alignment explanation
Indices: 4239612--4239658 Score: 76
Period size: 12 Copynumber: 3.8 Consensus size: 12
4239602 TATATTTACA
4239612 AAAACTACATACT
1 AAAACTA-ATACT
4239625 AAAACTAATACT
1 AAAACTAATACT
4239637 AAAACTAATACT
1 AAAACTAATACT
*
4239649 AATACTAATA
1 AAAACTAATA
4239659 TTATATTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 26 0.79
13 7 0.21
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAACTAATACT
Found at i:4248008 original size:35 final size:35
Alignment explanation
Indices: 4247969--4248136 Score: 158
Period size: 35 Copynumber: 4.8 Consensus size: 35
4247959 AGTCGTATTC
* * * *
4247969 AGATAATACACAATGGTGTGTCATTTTTTTCATTT
1 AGATAATACACAATAGTGTGTCATGTGTTACATTT
* * *
4248004 AGATAATGCACAATAGTGTGTCATGTGTCACATTC
1 AGATAATACACAATAGTGTGTCATGTGTTACATTT
* * * *
4248039 AGATAATACACAACAGTATGTCATGTGTTGCGTTT
1 AGATAATACACAATAGTGTGTCATGTGTTACATTT
* ** *
4248074 AGATAATGCACAATAGTGTGTCATGT-TCCGCATTC
1 AGATAATACACAATAGTGTGTCATGTGT-TACATTT
* * *
4248109 AGATAATATACAGTAGTATGTCATGTGT
1 AGATAATACACAATAGTGTGTCATGTGT
4248137 CGTATTTAGA
Statistics
Matches: 107, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
34 1 0.01
35 105 0.98
36 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (35 bp):
AGATAATACACAATAGTGTGTCATGTGTTACATTT
Found at i:4248061 original size:70 final size:70
Alignment explanation
Indices: 4247965--4248160 Score: 252
Period size: 70 Copynumber: 2.8 Consensus size: 70
4247955 CACAAGTCGT
* * * * *
4247965 ATTCAGATAATACACAATGGTGTGTCATTTTTTTCATTTAGATAATGCACAATAGTGTGTCATGT
1 ATTCAGATAATACACAATAGTATGTCATGTGTTGCATTTAGATAATGCACAATAGTGTGTCATGT
4248030 GT-CAC
66 -TCCAC
* *
4248035 ATTCAGATAATACACAACAGTATGTCATGTGTTGCGTTTAGATAATGCACAATAGTGTGTCATGT
1 ATTCAGATAATACACAATAGTATGTCATGTGTTGCATTTAGATAATGCACAATAGTGTGTCATGT
*
4248100 TCCGC
66 TCCAC
* * * *
4248105 ATTCAGATAATATACAGTAGTATGTCATGTGTCGTATTTAGAGT-ATGCACAATAGT
1 ATTCAGATAATACACAATAGTATGTCATGTGTTGCATTTAGA-TAATGCACAATAGT
4248161 TAGTCATTGT
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
69 1 0.01
70 108 0.98
71 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (70 bp):
ATTCAGATAATACACAATAGTATGTCATGTGTTGCATTTAGATAATGCACAATAGTGTGTCATGT
TCCAC
Found at i:4252416 original size:6 final size:6
Alignment explanation
Indices: 4252400--4252430 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
4252390 ATAATTTCTC
*
4252400 ATTTAA GTTTAA ATTTAA ATTTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
4252431 ATAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:4252705 original size:18 final size:20
Alignment explanation
Indices: 4252663--4252709 Score: 71
Period size: 18 Copynumber: 2.4 Consensus size: 20
4252653 CTTTTCTTTT
4252663 TTTTTTGTTGTAATTTTCGGA
1 TTTTTT-TTGTAATTTTCGGA
4252684 TTTTTTTT-TAATTTTC-GA
1 TTTTTTTTGTAATTTTCGGA
4252702 TTTTTTTT
1 TTTTTTTT
4252710 ATTTTCAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.38
19 8 0.31
20 2 0.08
21 6 0.23
ACGTcount: A:0.13, C:0.04, G:0.11, T:0.72
Consensus pattern (20 bp):
TTTTTTTTGTAATTTTCGGA
Found at i:4252997 original size:17 final size:17
Alignment explanation
Indices: 4252975--4253016 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
4252965 GTGAAAGGTG
4252975 GAAGATGAATGCTTGGT
1 GAAGATGAATGCTTGGT
4252992 GAAGATGAATGCTTGGT
1 GAAGATGAATGCTTGGT
4253009 GAAGATGA
1 GAAGATGA
4253017 CAATGGTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.33, C:0.05, G:0.36, T:0.26
Consensus pattern (17 bp):
GAAGATGAATGCTTGGT
Found at i:4255259 original size:5 final size:5
Alignment explanation
Indices: 4255249--4255280 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
4255239 TTAGAGTACA
*
4255249 AAAAG AAAAG AAAAG AAAAG AAAAT AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
4255281 GAAATTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:4258188 original size:335 final size:334
Alignment explanation
Indices: 4257556--4258226 Score: 1180
Period size: 335 Copynumber: 2.0 Consensus size: 334
4257546 TTACTTGTAG
*
4257556 GATGTACCAAGAGACAACATTTTCAAAATGAAGGTTTAGGAGACGTGACCTTTAAAAATCCAAAA
1 GATGTACCAAGAGACAACATTTTCAAAATGAAGGTTTAGGAGACATGACCTTTAAAAATCCAAAA
* * * * * *
4257621 GATGTGTCTATTGAGCAGTAAAAGTCCGTAATTTTTCGTTCAAAGGATATGACCTTAGGAGGACC
66 GATGTGACTATTGAGCAGCAAAAGTACGCAATTTTTCATTCAAAGGATATGACCATAGGAGGACC
* * *
4257686 AATGGGCGTGACTCATGAGGATTCAATGAACACGACAATTTGAAAGTTATGGGTCATCACATTTG
131 AATAGACGTGACTCATGAGGATTCAATGAACACGACAATTTGAAAGTTACGGGTCATCACATTTG
* *
4257751 GAATGTCAAGGAACCCAAACTTTCAAAACAAAATGACATGGACATATCTCGCACAAGTTTCTATT
196 GAATGTCAAGGAACCCAAACTTTCAAAACAAAATGACATGGACATATCTCACACAAGTTCCTATT
4257816 GAAGAGATCCCCATTTTTGACGAAACAACAACTATGGAATGGAAGAACGTTGAAGAAAAACCACC
261 GAAGAGATCCCCATTTTTGACGAAACAACAACTATGGAATGGAAGAACGTTGAAGAAAAACCACC
*
4257881 TTTCGATTT
326 TTTCAATTT
* *
4257890 GATGTACCAAGAGATAATATTTGTCAAAATGAAGGTTTAGGAGACATGACCTTTAAAAATCCAAA
1 GATGTACCAAGAGACAACATTT-TCAAAATGAAGGTTTAGGAGACATGACCTTTAAAAATCCAAA
4257955 AGATGTGACTATTGAGCAGCAAAAGTACGCAATTTTTCATTCAAAGGATATGACCATAGGAGGAC
65 AGATGTGACTATTGAGCAGCAAAAGTACGCAATTTTTCATTCAAAGGATATGACCATAGGAGGAC
*
4258020 CAATAGACGTGACTCATGAGGATTCAATGAACATGACAATTTGAAAGTTACGGGTCATCACATTT
130 CAATAGACGTGACTCATGAGGATTCAATGAACACGACAATTTGAAAGTTACGGGTCATCACATTT
4258085 GGAATGTCAAGGAACCCAAACTTTCAAAACAAAATGACATGGACATATCTCACACAAGTTCCTAT
195 GGAATGTCAAGGAACCCAAACTTTCAAAACAAAATGACATGGACATATCTCACACAAGTTCCTAT
*
4258150 TGAAGAGATCCCCATTTTTGACGAAACAACAACTATGGAATGGAGGAACGTTGAAGAAAAACCAC
260 TGAAGAGATCCCCATTTTTGACGAAACAACAACTATGGAATGGAAGAACGTTGAAGAAAAACCAC
4258215 CTTTCAATTT
325 CTTTCAATTT
4258225 GA
1 GA
4258227 GGACAAATCA
Statistics
Matches: 319, Mismatches: 17, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
334 20 0.06
335 299 0.94
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (334 bp):
GATGTACCAAGAGACAACATTTTCAAAATGAAGGTTTAGGAGACATGACCTTTAAAAATCCAAAA
GATGTGACTATTGAGCAGCAAAAGTACGCAATTTTTCATTCAAAGGATATGACCATAGGAGGACC
AATAGACGTGACTCATGAGGATTCAATGAACACGACAATTTGAAAGTTACGGGTCATCACATTTG
GAATGTCAAGGAACCCAAACTTTCAAAACAAAATGACATGGACATATCTCACACAAGTTCCTATT
GAAGAGATCCCCATTTTTGACGAAACAACAACTATGGAATGGAAGAACGTTGAAGAAAAACCACC
TTTCAATTT
Found at i:4261212 original size:19 final size:20
Alignment explanation
Indices: 4261175--4261216 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
4261165 AACCCCCTTG
4261175 AAAATACATGATTTTTAATGA
1 AAAATACATGA-TTTTAATGA
4261196 AAAATACATGA-TTTAATGA
1 AAAATACATGATTTTAATGA
4261215 AA
1 AA
4261217 GTACATGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.48
21 11 0.52
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (20 bp):
AAAATACATGATTTTAATGA
Found at i:4263306 original size:24 final size:21
Alignment explanation
Indices: 4263271--4263313 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
4263261 GGAACATTCT
*
4263271 TTTGAACTTCAATAGGTACATCC
1 TTTGAAATTCAA-AGG-ACATCC
4263294 TTTGAAATGTCAAAGGACAT
1 TTTGAAAT-TCAAAGGACAT
4263314 GTCTTGTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (21 bp):
TTTGAAATTCAAAGGACATCC
Found at i:4264572 original size:24 final size:24
Alignment explanation
Indices: 4264545--4264595 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
4264535 TTTTCTTTTC
* * * *
4264545 TTTTATTCTTTTTGTGTGCTTTAA
1 TTTTATTATTTTGGAGTGCTTCAA
*
4264569 TTTTCTTATTTTGGAGTGCTTCAA
1 TTTTATTATTTTGGAGTGCTTCAA
4264593 TTT
1 TTT
4264596 CTTTGCTGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.14, C:0.10, G:0.14, T:0.63
Consensus pattern (24 bp):
TTTTATTATTTTGGAGTGCTTCAA
Found at i:4265290 original size:18 final size:18
Alignment explanation
Indices: 4265267--4265301 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4265257 ACATTATTTT
4265267 TTTAATGAAAATACATGA
1 TTTAATGAAAATACATGA
*
4265285 TTTAATGAAAGTACATG
1 TTTAATGAAAATACATG
4265302 CTTTGGCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (18 bp):
TTTAATGAAAATACATGA
Found at i:4274105 original size:18 final size:18
Alignment explanation
Indices: 4274078--4274113 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4274068 ATATTGCATC
*
4274078 TAGTTTATTTAATAAAAT
1 TAGTTCATTTAATAAAAT
*
4274096 TAGTTCATTTATTAAAAT
1 TAGTTCATTTAATAAAAT
4274114 AAATCTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (18 bp):
TAGTTCATTTAATAAAAT
Found at i:4276183 original size:178 final size:179
Alignment explanation
Indices: 4275884--4276240 Score: 707
Period size: 178 Copynumber: 2.0 Consensus size: 179
4275874 TTAATTAGAC
4275884 TTATAAGGTTGGGTCTTTGTTCTCTTATAGCACTGGTTCTTCCTTAGTCTATTAAGATACTATCT
1 TTATAAGGTTGGGTCTTTGTTCTCTTATAGCACTGGTTCTTCCTTAGTCTATTAAGATACTATCT
4275949 TGCCCATTGTGCCCGTATAAGAGAATACATCTATTTGTCATAAATGAAGTTGTTTAGTGAAGCAC
66 TGCCCATTGTGCCCGTATAAGAGAATACATCTATTTGTCATAAATGAAGTTGTTTAGTGAAGCAC
4276014 CACTTAAC-TTTCACTAAAATACGCAACTGGTCGTCCTTCTTGAGTCAA
131 CACTTAACTTTTCACTAAAATACGCAACTGGTCGTCCTTCTTGAGTCAA
4276062 TTATAAGGTTGGGTCTTTGTTCTCTTATAGCACTGGTTCTTCCTTAGTCTATTAAGATACTATCT
1 TTATAAGGTTGGGTCTTTGTTCTCTTATAGCACTGGTTCTTCCTTAGTCTATTAAGATACTATCT
4276127 TGCCCATTGTGCCCGTATAAGAGAATACATCTATTTGTCATAAATGAAGTTGTTTAGTGAAGCAC
66 TGCCCATTGTGCCCGTATAAGAGAATACATCTATTTGTCATAAATGAAGTTGTTTAGTGAAGCAC
4276192 CACTTAACTTTTCACTAAAATACGCAACTGGTCGTCCTTCTTGAGTCAA
131 CACTTAACTTTTCACTAAAATACGCAACTGGTCGTCCTTCTTGAGTCAA
4276241 AACAGCACCT
Statistics
Matches: 178, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
178 138 0.78
179 40 0.22
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (179 bp):
TTATAAGGTTGGGTCTTTGTTCTCTTATAGCACTGGTTCTTCCTTAGTCTATTAAGATACTATCT
TGCCCATTGTGCCCGTATAAGAGAATACATCTATTTGTCATAAATGAAGTTGTTTAGTGAAGCAC
CACTTAACTTTTCACTAAAATACGCAACTGGTCGTCCTTCTTGAGTCAA
Found at i:4278460 original size:65 final size:65
Alignment explanation
Indices: 4278345--4278468 Score: 180
Period size: 65 Copynumber: 1.9 Consensus size: 65
4278335 AAGAGCCAGG
* * *
4278345 AGTGCATCGATGCAGGGTCTGTGCATCGGTACATCAAAAGCATTCTATGTTTC-ATAAAAATCTA
1 AGTGCATCGATGCAGGATATGTGCATCGGTACATCAAAAACATTCTATG-TTCAATAAAAATCTA
4278409 T
65 T
*
4278410 AGTGCATCGATGCATGATATGTGCATCGGTACATCAAAAACATT-TGATGTTCAATAAAA
1 AGTGCATCGATGCAGGATATGTGCATCGGTACATCAAAAACATTCT-ATGTTCAATAAAA
4278469 TTAGGTGTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
64 4 0.08
65 49 0.92
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (65 bp):
AGTGCATCGATGCAGGATATGTGCATCGGTACATCAAAAACATTCTATGTTCAATAAAAATCTAT
Found at i:4280266 original size:15 final size:16
Alignment explanation
Indices: 4280239--4280268 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4280229 CTTGAACATT
4280239 TTTATACTGAATTTAC
1 TTTATACTGAATTTAC
4280255 TTTATACT-AATTTA
1 TTTATACTGAATTTA
4280269 ATAATATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTATACTGAATTTAC
Found at i:4281876 original size:116 final size:115
Alignment explanation
Indices: 4281673--4281902 Score: 370
Period size: 116 Copynumber: 2.0 Consensus size: 115
4281663 ATCCTACCTA
*
4281673 TTCACCTTTACATTTACTACCCTTAACCATCTTTTTTAAGCCATTCACTTATGCTGGTTATTTTA
1 TTCACCTTTACATTTACTACCCTTAACCATCTTTTTTAAGCCATTCACTTATGCAGGTTATTTTA
* *
4281738 CTTCCTTTATAGATCCACAATCATTCGAGAAGGTAGAATTGCCTTACATG
66 CTTCCTTCATAGATCCACAATCAATCGAGAAGGTAGAATTGCCTTACATG
* *
4281788 TTCACCTTTACATTTACTACCCTTAACCATCTATTTTTGAGCCATTCACTTATGCAGGTTGTTTT
1 TTCACCTTTACATTTACTACCCTTAACCATCT-TTTTTAAGCCATTCACTTATGCAGGTTATTTT
* * * *
4281853 TCTTCCTTCCTAGATCCATAATCAATCGAGAAGTTAGAATTGCCTTACAT
65 ACTTCCTTCATAGATCCACAATCAATCGAGAAGGTAGAATTGCCTTACAT
4281903 CAAGTGGTAA
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
115 32 0.30
116 73 0.70
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (115 bp):
TTCACCTTTACATTTACTACCCTTAACCATCTTTTTTAAGCCATTCACTTATGCAGGTTATTTTA
CTTCCTTCATAGATCCACAATCAATCGAGAAGGTAGAATTGCCTTACATG
Found at i:4282044 original size:23 final size:24
Alignment explanation
Indices: 4282018--4282072 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
4282008 AAATCTAACA
4282018 AAGAAAATCAAAGCACTCAAAA-G
1 AAGAAAATCAAAGCACTCAAAAGG
* * *
4282041 AAGAAATTGAAAGCACTTAAAAGGG
1 AAGAAAATCAAAGCACTCAAAA-GG
4282066 AAGAAAA
1 AAGAAAA
4282073 AGGAACGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 19 0.73
25 7 0.27
ACGTcount: A:0.60, C:0.11, G:0.18, T:0.11
Consensus pattern (24 bp):
AAGAAAATCAAAGCACTCAAAAGG
Found at i:4286527 original size:13 final size:13
Alignment explanation
Indices: 4286505--4286547 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
4286495 TCCTAATAGG
4286505 CAAT-TTTGAAAA
1 CAATGTTTGAAAA
*
4286517 CTATGTTTGAAAA
1 CAATGTTTGAAAA
4286530 CAATGTTTGAAAA
1 CAATGTTTGAAAA
4286543 TCAAT
1 -CAAT
4286548 ATGGAGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 3 0.11
13 20 0.74
14 4 0.15
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (13 bp):
CAATGTTTGAAAA
Found at i:4290299 original size:81 final size:81
Alignment explanation
Indices: 4290202--4290363 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
4290192 AGAGCATCCA
4290202 CTATCAAGGTACAATGAGTTTGAATTTGTTTCTCATGCCTTGTAGCAATGCTCATTTTCTTACAA
1 CTATCAAGGTACAATGAGTTTGAATTTGTTTCTCATGCCTTGTAGCAATGCTCATTTTCTTACAA
4290267 GCATAGATTAATTTTT
66 GCATAGATTAATTTTT
4290283 CTATCAAGGTACAATGAGTTTGAATTTGTTTCTCATGCCTTGTAGCAATGCTCATTTTCTTACAA
1 CTATCAAGGTACAATGAGTTTGAATTTGTTTCTCATGCCTTGTAGCAATGCTCATTTTCTTACAA
4290348 GCATAGATTAATTTTT
66 GCATAGATTAATTTTT
4290364 TTTGGTACCC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (81 bp):
CTATCAAGGTACAATGAGTTTGAATTTGTTTCTCATGCCTTGTAGCAATGCTCATTTTCTTACAA
GCATAGATTAATTTTT
Found at i:4290663 original size:20 final size:20
Alignment explanation
Indices: 4290626--4290664 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4290616 GAAGCTTTAA
* *
4290626 GATCATCAATATCTTTTGAT
1 GATCATCAATAACCTTTGAT
*
4290646 GATCATCATTAACCTTTGA
1 GATCATCAATAACCTTTGA
4290665 AAGTAAATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (20 bp):
GATCATCAATAACCTTTGAT
Found at i:4291350 original size:84 final size:84
Alignment explanation
Indices: 4291256--4291424 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
4291246 GTCTCTTTCT
4291256 TTTTCTCGTCCATCTTTTCGACGTCTACCTCATCTTGAAGCATCATTTCATGCGTGAGAAGAGAA
1 TTTTCTCGTCCATCTTTTCGACGTCTACCTCATCTTGAAGCATCATTTCATGCGTGAGAAGAGAA
4291321 CCAATTAGCTCATTAAGGG
66 CCAATTAGCTCATTAAGGG
4291340 TTTTCTCGTCCATCTTTTCGACGTCTACCTCATCTTGAAGCATCATTTCATGCGTGAGAAGAGAA
1 TTTTCTCGTCCATCTTTTCGACGTCTACCTCATCTTGAAGCATCATTTCATGCGTGAGAAGAGAA
4291405 CCAATTAGCTCATTAAGGG
66 CCAATTAGCTCATTAAGGG
4291424 T
1 T
4291425 CAAGGATTTT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.34
Consensus pattern (84 bp):
TTTTCTCGTCCATCTTTTCGACGTCTACCTCATCTTGAAGCATCATTTCATGCGTGAGAAGAGAA
CCAATTAGCTCATTAAGGG
Found at i:4292876 original size:65 final size:65
Alignment explanation
Indices: 4292788--4292956 Score: 211
Period size: 65 Copynumber: 2.6 Consensus size: 65
4292778 TACACTTTGG
** * *
4292788 GTGCATCGGTACA-CTAATTACATTTGATGTTTCA-AAAGAGCCAGGAGTGCATCGATGCATGGG
1 GTGCATCGGTACATC-AAAAACATTCGATGTTTCATAAA-AACCAGGAGTGCATCGATGCAT-GG
4292851 T-T
63 TAT
** *
4292853 GTGCATCGGTACATCAAAAACATTCGATGTTTCATAAAAACTTGTAGTGCATCGATGCATGGTAT
1 GTGCATCGGTACATCAAAAACATTCGATGTTTCATAAAAACCAGGAGTGCATCGATGCATGGTAT
4292918 GTGCATCGGTACATCAAAAACATTCGATG-TTCAATAAAA
1 GTGCATCGGTACATCAAAAACATTCGATGTTTC-ATAAAA
4292957 TTAGGTGTGT
Statistics
Matches: 93, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
64 6 0.06
65 83 0.89
66 4 0.04
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (65 bp):
GTGCATCGGTACATCAAAAACATTCGATGTTTCATAAAAACCAGGAGTGCATCGATGCATGGTAT
Found at i:4305367 original size:11 final size:12
Alignment explanation
Indices: 4305353--4305385 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4305343 ATGATGCTTT
*
4305353 AATGGTGATG-A
1 AATGGTAATGAA
4305364 AATGGTAATGAA
1 AATGGTAATGAA
4305376 AATGGTAATG
1 AATGGTAATG
4305386 CTGTTGGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.27
Consensus pattern (12 bp):
AATGGTAATGAA
Found at i:4305821 original size:22 final size:22
Alignment explanation
Indices: 4305791--4305832 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4305781 AATAGGTAGG
4305791 TGTTCGTTCATATTGCTGCCTA
1 TGTTCGTTCATATTGCTGCCTA
*
4305813 TGTTTGTTCATATTGCTGCC
1 TGTTCGTTCATATTGCTGCC
4305833 CATTTTGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.48
Consensus pattern (22 bp):
TGTTCGTTCATATTGCTGCCTA
Found at i:4306502 original size:21 final size:21
Alignment explanation
Indices: 4306461--4306502 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
4306451 TGAATATAAG
*
4306461 TTTATTATATGTTATAAGAAAA
1 TTTATTATATATTAT-AGAAAA
4306483 TTTATATATATATTAT-GAAA
1 TTTAT-TATATATTATAGAAA
4306503 TATAAAGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 5 0.28
23 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (21 bp):
TTTATTATATATTATAGAAAA
Found at i:4332432 original size:21 final size:23
Alignment explanation
Indices: 4332399--4332445 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
4332389 TTAACTTTTC
*
4332399 TTTCTTTTATTTTATTTTCTT-T
1 TTTCTTCTATTTTATTTTCTTCT
*
4332421 TTTCTTCT-TTTTGTTTTCTTCT
1 TTTCTTCTATTTTATTTTCTTCT
4332443 TTT
1 TTT
4332446 GAGTGCTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.81
Consensus pattern (23 bp):
TTTCTTCTATTTTATTTTCTTCT
Found at i:4333487 original size:19 final size:19
Alignment explanation
Indices: 4333463--4333503 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
4333453 AGGTAAAGGC
4333463 TGGGGGTGAATGATCTCCT
1 TGGGGGTGAATGATCTCCT
4333482 TGGGGGTGAATGATCTCCT
1 TGGGGGTGAATGATCTCCT
4333501 TGG
1 TGG
4333504 TCGTGACCGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.15, C:0.15, G:0.39, T:0.32
Consensus pattern (19 bp):
TGGGGGTGAATGATCTCCT
Found at i:4333509 original size:19 final size:19
Alignment explanation
Indices: 4333463--4333509 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
4333453 AGGTAAAGGC
*
4333463 TGGGGGTGAATGATCTCCT
1 TGGGCGTGAATGATCTCCT
*
4333482 TGGGGGTGAATGATCTCCT
1 TGGGCGTGAATGATCTCCT
*
4333501 TGGTCGTGA
1 TGGGCGTGA
4333510 CCGCCCAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.32
Consensus pattern (19 bp):
TGGGCGTGAATGATCTCCT
Found at i:4336988 original size:90 final size:88
Alignment explanation
Indices: 4336829--4337004 Score: 289
Period size: 90 Copynumber: 2.0 Consensus size: 88
4336819 TCTAACACAC
* *
4336829 CCTTTTGTAGCCAAGTTACCCTAATCATATTAGGTTTTATTATTTCAAATTAATTAAATCTATAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGTTTTATTATTTCAAATTAATTAAATATATAT
* *
4336894 TTAATTAATTGGAATTTAATAAT
66 TTAATTAATTGAAATTAAATAAT
*
4336917 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATATAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTA-GG-TTTTATTATTTCAAATTAATTAAATATAT
4336982 ATTTAATTAATTGAAATTAAATA
64 ATTTAATTAATTGAAATTAAATA
4337005 TTTAGGATTA
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 30 0.37
89 2 0.02
90 49 0.60
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.45
Consensus pattern (88 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGTTTTATTATTTCAAATTAATTAAATATATAT
TTAATTAATTGAAATTAAATAAT
Found at i:4342210 original size:44 final size:44
Alignment explanation
Indices: 4342145--4342240 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 44
4342135 ATTAAATTAC
* *
4342145 ATAACTAATAACCTTAGCATGATATGTATGATTGTGGT-ATAGATG
1 ATAA-TAATAACCTTAGCATGATATATATGATTAT-GTCATAGATG
*
4342190 ATAATAATAACCTTAGCATGATATATGTGATTATGTCATAGATG
1 ATAATAATAACCTTAGCATGATATATATGATTATGTCATAGATG
4342234 ATAATAA
1 ATAATAA
4342241 CCTTTGCATG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 2 0.04
44 41 0.87
45 4 0.09
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (44 bp):
ATAATAATAACCTTAGCATGATATATATGATTATGTCATAGATG
Found at i:4344291 original size:23 final size:23
Alignment explanation
Indices: 4344247--4344291 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
4344237 GCTCAAGATA
* **
4344247 CAACATCACCACCATCTCCATTT
1 CAACATCAACACCATCAACATTT
*
4344270 CAACATCAACGCCATCAACATT
1 CAACATCAACACCATCAACATT
4344292 ATCCATTAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.40, G:0.02, T:0.22
Consensus pattern (23 bp):
CAACATCAACACCATCAACATTT
Found at i:4344602 original size:17 final size:18
Alignment explanation
Indices: 4344580--4344615 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
4344570 CAAACAATAG
4344580 AATCAAAAAGAAAA-AAA
1 AATCAAAAAGAAAAGAAA
4344597 AATCAAAAAGAAAAGAAA
1 AATCAAAAAGAAAAGAAA
4344615 A
1 A
4344616 GAAAGACTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.81, C:0.06, G:0.08, T:0.06
Consensus pattern (18 bp):
AATCAAAAAGAAAAGAAA
Found at i:4344907 original size:18 final size:17
Alignment explanation
Indices: 4344884--4344917 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4344874 ATACTTTGAA
4344884 TCATTTCTTCTACCTTTT
1 TCATTTCTTCT-CCTTTT
*
4344902 TCATTTTTTCTCCTTT
1 TCATTTCTTCTCCTTT
4344918 CTACCCTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.65
Consensus pattern (17 bp):
TCATTTCTTCTCCTTTT
Found at i:4353701 original size:16 final size:16
Alignment explanation
Indices: 4353659--4353705 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
4353649 ATTATTAAAT
*
4353659 TCATTTCTTTCATTCA
1 TCATTTCTTTCATTAA
* *
4353675 T-TTCTTATTTCATTAA
1 TCAT-TTCTTTCATTAA
4353691 TCATTTCTTTCATTA
1 TCATTTCTTTCATTA
4353706 CTTGTGCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
15 1 0.04
16 22 0.92
17 1 0.04
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (16 bp):
TCATTTCTTTCATTAA
Found at i:4373202 original size:17 final size:18
Alignment explanation
Indices: 4373175--4373209 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
4373165 ACATCCATGT
4373175 TCAAAAGACAAAAGAAAA
1 TCAAAAGACAAAAGAAAA
4373193 TCAAAA-ACAAAAGAAAA
1 TCAAAAGACAAAAGAAAA
4373210 GACTCTTACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.74, C:0.11, G:0.09, T:0.06
Consensus pattern (18 bp):
TCAAAAGACAAAAGAAAA
Found at i:4375306 original size:43 final size:45
Alignment explanation
Indices: 4375233--4375336 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 45
4375223 AGGATTAGAT
* *
4375233 TTATTATTTTATTAGGAATTAAGGTTGAGTTAAAACGTTTTTTAG-TTA
1 TTATTATTTTATTAGGAATTAA-G--GAGTTAAAAC-ATGTTTAGTTTA
* *
4375281 TTATTATTTTATTAGGAATT-A-GAGTTAAGACATGTTTAGTTTG
1 TTATTATTTTATTAGGAATTAAGGAGTTAAAACATGTTTAGTTTA
4375324 TTATTATTTTATT
1 TTATTATTTTATT
4375337 CATTAGTTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
42 6 0.12
43 24 0.47
47 1 0.02
48 20 0.39
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.53
Consensus pattern (45 bp):
TTATTATTTTATTAGGAATTAAGGAGTTAAAACATGTTTAGTTTA
Found at i:4380139 original size:152 final size:152
Alignment explanation
Indices: 4379913--4380208 Score: 513
Period size: 152 Copynumber: 1.9 Consensus size: 152
4379903 AGGTTGGTTC
* *
4379913 TTTTTTTTCTTTGACTCTTAGTGCTTTAGGTTCTTTTGTTTTTCCTTTTTATTGTTGTTTTGCAT
1 TTTTTTTTCTTTGACTCTTAGTGCTTTAGGTTCTTTTGTTTTTCCTTTTTAATGTTCTTTTGCAT
* *
4379978 TATCTAACACATTATCTTTCTTGTGTTAGTAGAACTAAAGACTTTTCATACTTCTTCCTTCTTTG
66 TATCTAACACATTATCTTTCTTGTGTTAGTAGAACTAAAGACTTTGCACACTTCTTCCTTCTTTG
4380043 CATTCTCGTTCTCTGGGTTGGG
131 CATTCTCGTTCTCTGGGTTGGG
4380065 TTTTCTTTTCTTTGACTCTTAGTGCTTTAGGTTCTTTT-TTTTTCCTTTTTAATGTTCTTTTGCA
1 TTTT-TTTTCTTTGACTCTTAGTGCTTTAGGTTCTTTTGTTTTTCCTTTTTAATGTTCTTTTGCA
* * *
4380129 TTTTGTAACACATTATCTTTCTTGTGTTAGTAGAACTAAAGAGTTTGCACACTTCTTCCTTCTTT
65 TTATCTAACACATTATCTTTCTTGTGTTAGTAGAACTAAAGACTTTGCACACTTCTTCCTTCTTT
4380194 GCATTCTCGTTCTCT
130 GCATTCTCGTTCTCT
4380209 TGGAGTCTAA
Statistics
Matches: 136, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
152 103 0.76
153 33 0.24
ACGTcount: A:0.15, C:0.18, G:0.13, T:0.54
Consensus pattern (152 bp):
TTTTTTTTCTTTGACTCTTAGTGCTTTAGGTTCTTTTGTTTTTCCTTTTTAATGTTCTTTTGCAT
TATCTAACACATTATCTTTCTTGTGTTAGTAGAACTAAAGACTTTGCACACTTCTTCCTTCTTTG
CATTCTCGTTCTCTGGGTTGGG
Found at i:4380246 original size:152 final size:149
Alignment explanation
Indices: 4379919--4380254 Score: 460
Period size: 152 Copynumber: 2.2 Consensus size: 149
4379909 GTTCTTTTTT
* *
4379919 TTCTTTGACTCTTAGTGCTTTAGGTTCTTTTGTTTTTCCTTTTTATTGTTGTTTTGCATTATCTA
1 TTCTTTGACTCTTAGTGCTTTAGGTTCTTTT-TTTTTCCTTTTTAATGTTCTTTTGCATTATCTA
* *
4379984 ACACATTATCTTTCTTGTGTTAGTAGAACTAAAGACTTTTCATACTTCTTCCTTCTTTGCATTCT
65 ACACATTATCTTTCTTGTGTTAGTAGAACTAAAGACTTTGCACACTTCTTCCTTCTTTGCATTCT
** **
4380049 CGTTCTCTGGGTTGGGTTTTCTT
130 CGTTCTC---GTTGGGTTAACCC
* *
4380072 TTCTTTGACTCTTAGTGCTTTAGGTTCTTTTTTTTTCCTTTTTAATGTTCTTTTGCATTTTGTAA
1 TTCTTTGACTCTTAGTGCTTTAGGTTCTTTTTTTTTCCTTTTTAATGTTCTTTTGCATTATCTAA
*
4380137 CACATTATCTTTCTTGTGTTAGTAGAACTAAAGAGTTTGCACACTTCTTCCTTCTTTGCATTCTC
66 CACATTATCTTTCTTGTGTTAGTAGAACTAAAGACTTTGCACACTTCTTCCTTCTTTGCATTCTC
4380202 GTTCTC-TTGGAGTCTAACCC
131 GTTCTCGTTGG-GT-TAACCC
* * *
4380222 TTGTTTGGCCTCTTAGAGCTTTTAGGTT-TTTTT
1 TTCTTT-GACTCTTAGTGC-TTTAGGTTCTTTTT
4380255 ATCGCCTTTA
Statistics
Matches: 165, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
148 4 0.02
149 2 0.01
150 7 0.04
151 15 0.09
152 106 0.64
153 31 0.19
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.52
Consensus pattern (149 bp):
TTCTTTGACTCTTAGTGCTTTAGGTTCTTTTTTTTTCCTTTTTAATGTTCTTTTGCATTATCTAA
CACATTATCTTTCTTGTGTTAGTAGAACTAAAGACTTTGCACACTTCTTCCTTCTTTGCATTCTC
GTTCTCGTTGGGTTAACCC
Found at i:4389002 original size:78 final size:79
Alignment explanation
Indices: 4388878--4389033 Score: 296
Period size: 78 Copynumber: 2.0 Consensus size: 79
4388868 GAATTTGAAA
4388878 AATACGATGGCACCACATGCCCTTAATCTCATATCACCATGGTTTGCCGAAGGATGATCGACCAT
1 AATACGATGG-ACCACATGCCCTTAATCTCATATCACCATGGTTTGCCGAAGGATGATCGACCAT
4388943 GTGCAAGATGAAACT
65 GTGCAAGATGAAACT
4388958 AATACGATGG-CCACATGCCCTTAATCTCATATCACCATGGTTTGCCGAAGGATGATCGACCATG
1 AATACGATGGACCACATGCCCTTAATCTCATATCACCATGGTTTGCCGAAGGATGATCGACCATG
4389022 TGCAAGATGAAA
66 TGCAAGATGAAA
4389034 AGCTAATGAT
Statistics
Matches: 76, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
78 66 0.87
80 10 0.13
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (79 bp):
AATACGATGGACCACATGCCCTTAATCTCATATCACCATGGTTTGCCGAAGGATGATCGACCATG
TGCAAGATGAAACT
Found at i:4389267 original size:178 final size:176
Alignment explanation
Indices: 4388958--4389287 Score: 642
Period size: 178 Copynumber: 1.9 Consensus size: 176
4388948 AGATGAAACT
4388958 AATACGATGGCCACATGCCCTTAATCTCATATCACCATGGTTTGCCGAAGGATGATCGACCATGT
1 AATACGATGGCCACATGCCCTTAATCTCATATCACCATGGTTTGCCGAAGGATGATCGACCATGT
4389023 GCAAGATGAAAAGCTAATGATTCACTGTTTTCAAGACAGTCTGAAAGGATATGCCGGAAAGTGGT
66 GCAAGATGAAAAGCTAATGATTCACTGTTTTCAAGACAGTCTGAAAGGATATGCCGGAAAGTGGT
4389088 ACAACCAATTAACTAGGGATCAAGTTCAAGCTTCCTGAATTTGAAA
131 ACAACCAATTAACTAGGGATCAAGTTCAAGCTTCCTGAATTTGAAA
4389134 AATACGATGGCACCACATGCCCTTAATCTCATATCACCATGGTTTGCCGAAGGATGATCGACCAT
1 AATACGATGG--CCACATGCCCTTAATCTCATATCACCATGGTTTGCCGAAGGATGATCGACCAT
4389199 GTGCAAGATGAAAAGCTAATGATTCACTGTTTTCAAGACAGTCTGAAAGGATATGCCGGAAAGTG
64 GTGCAAGATGAAAAGCTAATGATTCACTGTTTTCAAGACAGTCTGAAAGGATATGCCGGAAAGTG
4389264 GTACAACCAATTAACTAGGGATCA
129 GTACAACCAATTAACTAGGGATCA
4389288 CATTAAATCA
Statistics
Matches: 152, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
176 10 0.07
178 142 0.93
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (176 bp):
AATACGATGGCCACATGCCCTTAATCTCATATCACCATGGTTTGCCGAAGGATGATCGACCATGT
GCAAGATGAAAAGCTAATGATTCACTGTTTTCAAGACAGTCTGAAAGGATATGCCGGAAAGTGGT
ACAACCAATTAACTAGGGATCAAGTTCAAGCTTCCTGAATTTGAAA
Found at i:4395203 original size:14 final size:15
Alignment explanation
Indices: 4395165--4395201 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
4395155 TTTAAAGACA
4395165 AAAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
4395180 AAAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
4395195 AAAAAAA
1 AAAAAAA
4395202 GAGAGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:4397726 original size:23 final size:23
Alignment explanation
Indices: 4397700--4397748 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
4397690 AACATTGTAG
4397700 GTAGTGCTCTCTCAATAAGGTAT
1 GTAGTGCTCTCTCAATAAGGTAT
4397723 GTAGTGCTCTCTCAATAAGGTAT
1 GTAGTGCTCTCTCAATAAGGTAT
4397746 GTA
1 GTA
4397749 CTCCTTAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (23 bp):
GTAGTGCTCTCTCAATAAGGTAT
Found at i:4398049 original size:77 final size:77
Alignment explanation
Indices: 4397922--4398077 Score: 312
Period size: 77 Copynumber: 2.0 Consensus size: 77
4397912 TTCCTCACGG
4397922 ATCTCTTCGAGCAACTTGTTCGAGAAGAACATGAAAGAGGTCTTATAGGTCATTTTGGAGTAAGC
1 ATCTCTTCGAGCAACTTGTTCGAGAAGAACATGAAAGAGGTCTTATAGGTCATTTTGGAGTAAGC
4397987 AAAACCTTGGAA
66 AAAACCTTGGAA
4397999 ATCTCTTCGAGCAACTTGTTCGAGAAGAACATGAAAGAGGTCTTATAGGTCATTTTGGAGTAAGC
1 ATCTCTTCGAGCAACTTGTTCGAGAAGAACATGAAAGAGGTCTTATAGGTCATTTTGGAGTAAGC
4398064 AAAACCTTGGAA
66 AAAACCTTGGAA
4398076 AT
1 AT
4398078 TTTGAATCAA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (77 bp):
ATCTCTTCGAGCAACTTGTTCGAGAAGAACATGAAAGAGGTCTTATAGGTCATTTTGGAGTAAGC
AAAACCTTGGAA
Found at i:4403436 original size:21 final size:21
Alignment explanation
Indices: 4403410--4403451 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4403400 AAATCAGATG
4403410 CCGGAGGTCTCATGGGACACT
1 CCGGAGGTCTCATGGGACACT
4403431 CCGGAGGTCTCATGGGACACT
1 CCGGAGGTCTCATGGGACACT
4403452 TCGGTGTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.33, T:0.19
Consensus pattern (21 bp):
CCGGAGGTCTCATGGGACACT
Found at i:4409879 original size:30 final size:30
Alignment explanation
Indices: 4409843--4409908 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
4409833 TCAACTCAAC
*
4409843 TCAACTCACTACATTTTTAGCTAGCTTAAT
1 TCAACTCACTACATTTTTAGCTAGCTGAAT
4409873 TCAACTCACTACATTTTTAGCTAGCTGAAT
1 TCAACTCACTACATTTTTAGCTAGCTGAAT
4409903 TCAACT
1 TCAACT
4409909 TACCTTAGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (30 bp):
TCAACTCACTACATTTTTAGCTAGCTGAAT
Found at i:4409953 original size:20 final size:21
Alignment explanation
Indices: 4409913--4409953 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4409903 TCAACTTACC
* *
4409913 TTAGCTCCATTCAGCTCAACT
1 TTAGCTCCACTCAGATCAACT
4409934 TTAGCTCCACT-AGATCAACT
1 TTAGCTCCACTCAGATCAACT
4409954 CCAGTTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.32
Consensus pattern (21 bp):
TTAGCTCCACTCAGATCAACT
Found at i:4417872 original size:68 final size:68
Alignment explanation
Indices: 4417794--4417931 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
4417784 AGTATACACT
4417794 ATGATTATTAACAAAGGAAGTTTCACTAATGTCACCAGCACTATCATGGTGGATAAATTAGGTTT
1 ATGATTATTAACAAAGGAAGTTTCACTAATGTCACCAGCACTATCATGGTGGATAAATTAGGTTT
4417859 GCC
66 GCC
4417862 ATGATTATTAACAAAGGAAGTTTCACTAATGTCACCAGCACTATCATGGTGGATAAATTAGGTTT
1 ATGATTATTAACAAAGGAAGTTTCACTAATGTCACCAGCACTATCATGGTGGATAAATTAGGTTT
4417927 GCC
66 GCC
4417930 AT
1 AT
4417932 CTTTGAAGCA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (68 bp):
ATGATTATTAACAAAGGAAGTTTCACTAATGTCACCAGCACTATCATGGTGGATAAATTAGGTTT
GCC
Found at i:4424528 original size:19 final size:20
Alignment explanation
Indices: 4424504--4424549 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
4424494 AAGAGCCTGA
*
4424504 ATTTTCATT-ACAATAATGT
1 ATTTTCATTAAAAATAATGT
*
4424523 ATTTTCATTAAAAATCATGT
1 ATTTTCATTAAAAATAATGT
4424543 ATTTTCA
1 ATTTTCA
4424550 AAGGGGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (20 bp):
ATTTTCATTAAAAATAATGT
Found at i:4425201 original size:16 final size:16
Alignment explanation
Indices: 4425178--4425215 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
4425168 ACGAAAAGAT
4425178 AAGAAAAACAAA-TTGCA
1 AAGAAAAA-AAAGTTG-A
4425195 AAGAAAAAAAAGTTGA
1 AAGAAAAAAAAGTTGA
4425211 AAGAA
1 AAGAA
4425216 CATAACGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.68, C:0.05, G:0.16, T:0.11
Consensus pattern (16 bp):
AAGAAAAAAAAGTTGA
Found at i:4431093 original size:26 final size:27
Alignment explanation
Indices: 4431057--4431117 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
4431047 AATTTAGCAG
*
4431057 AAAAAAGTCAAGCACT-AAAATGAAGA
1 AAAAAAGTCAAGCACTCAAAAAGAAGA
*
4431083 AAAAAATTCAAGCACTCAAAAAGAAGA
1 AAAAAAGTCAAGCACTCAAAAAGAAGA
4431110 AATAAAAG
1 AA-AAAAG
4431118 AAAAGAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 15 0.50
27 11 0.37
28 4 0.13
ACGTcount: A:0.64, C:0.11, G:0.13, T:0.11
Consensus pattern (27 bp):
AAAAAAGTCAAGCACTCAAAAAGAAGA
Done.