Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008909.1 Hibiscus syriacus cultivar Beakdansim tig00112206_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: 2327114
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:1246469 original size:16 final size:18
Alignment explanation
Indices: 1246448--1246482 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
1246438 TTTACTCATT
1246448 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
1246464 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
1246482 T
1 T
1246483 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:1247311 original size:20 final size:20
Alignment explanation
Indices: 1247286--1247500 Score: 207
Period size: 20 Copynumber: 10.6 Consensus size: 20
1247276 TAGTTGAAAA
1247286 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
1247306 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
1247326 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
1247347 TCGCGTTGTGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
1247367 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
1247388 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
1247408 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
1247429 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * *
1247449 TCGCGTTGCGATAGTCTACA-G
1 TCGCGTTGCGAT--TTTCCATT
1247470 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
1247490 TCGCGTTGCGA
1 TCGCGTTGCGA
1247501 GAGTCTACAG
Statistics
Matches: 151, Mismatches: 38, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
19 4 0.03
20 87 0.58
21 56 0.37
22 4 0.03
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:1247328 original size:61 final size:61
Alignment explanation
Indices: 1247261--1247500 Score: 277
Period size: 61 Copynumber: 3.9 Consensus size: 61
1247251 ATTCGCGTTG
1247261 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTC
* * *
1247322 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGTGATTTTCCATTTCGCGTTGCGATAGTTG
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGAT-TTTC
* ** * ** ** * ** **
1247384 AAAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTCCATTTCGCGTTGCGATTTTC
* *
1247445 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCATTTCGCGTTGCGA
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGA
1247501 GAGTCTACAG
Statistics
Matches: 143, Mismatches: 32, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
61 99 0.69
62 43 0.30
63 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (61 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTC
Found at i:1247402 original size:82 final size:82
Alignment explanation
Indices: 1247306--1247592 Score: 352
Period size: 82 Copynumber: 3.5 Consensus size: 82
1247296 ATTTTCCATT
*
1247306 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGTGATTTTCCATTTCGC
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGC
1247371 GTTGCGATAGT-TGAAAA
66 GTTGCGATAGTCT-AAAA
1247388 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGC
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGC
* *
1247453 GTTGCGATAGTCTACAG
66 GTTGCGATAGTCTAAAA
* * * * *
1247470 TCGCGTTGCGATTTTCCATTTCGCGTTGCGAGAGTCT-ACAGTTGTCGTTGCGATTTTCCAAATT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTCC-ATTT
* * *
1247534 --CGATGCGATAGTCTACAG
63 CGCGTTGCGATAGTCTAAAA
* * *
1247552 TTGTCGTTGCGATTTTCCAAATT--CGTTGTGATAGTTGAAAA
1 TCG-CGTTGCGATTTTCC-ATTTCGCGTTGCGATAGTTGAAAA
1247593 AAAGATTTTG
Statistics
Matches: 183, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
81 1 0.01
82 146 0.80
83 30 0.16
84 6 0.03
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (82 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGC
GTTGCGATAGTCTAAAA
Found at i:1247511 original size:41 final size:41
Alignment explanation
Indices: 1247306--1247500 Score: 347
Period size: 41 Copynumber: 4.8 Consensus size: 41
1247296 ATTTTCCATT
1247306 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
*
1247347 TCGCGTTGTGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1247388 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
* *
1247429 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAA
1247470 TCGCGTTGCGATTTTCCATTTCGCGTTGCGA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGA
1247501 GAGTCTACAG
Statistics
Matches: 149, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
41 148 0.99
42 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
Found at i:1247541 original size:41 final size:41
Alignment explanation
Indices: 1247309--1247586 Score: 232
Period size: 41 Copynumber: 6.8 Consensus size: 41
1247299 TTCCATTTCG
* * * *
1247309 CGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAATCG-
1 CGTTGCGATTTTCCAATTC-CGTTGCGATAGTCT-ACAGTTGT
* * * * *
1247350 CGTTGTGATTTTCCATTTCGCGTTGCGATAGT-TGAAAATCG-
1 CGTTGCGATTTTCCAATTC-CGTTGCGATAGTCT-ACAGTTGT
* * * *
1247391 CGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAATCG-
1 CGTTGCGATTTTCCAATTC-CGTTGCGATAGTCT-ACAGTTGT
* *
1247432 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCG-
1 CGTTGCGATTTTCCAATTC-CGTTGCGATAGTCTACAGTTGT
* *
1247473 CGTTGCGATTTTCCATTTCGCGTTGCGAGAGTCTACAGTTGT
1 CGTTGCGATTTTCCAATTC-CGTTGCGATAGTCTACAGTTGT
*
1247515 CGTTGCGATTTTCCAAATT-CGATGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCC-AATTCCGTTGCGATAGTCTACAGTTGT
*
1247556 CGTTGCGATTTTCCAAATT-CGTTGTGATAGT
1 CGTTGCGATTTTCC-AATTCCGTTGCGATAGT
1247587 TGAAAAAAAG
Statistics
Matches: 223, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
41 205 0.92
42 15 0.07
43 3 0.01
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTTCCAATTCCGTTGCGATAGTCTACAGTTGT
Found at i:1247541 original size:123 final size:122
Alignment explanation
Indices: 1247306--1247592 Score: 334
Period size: 123 Copynumber: 2.3 Consensus size: 122
1247296 ATTTTCCATT
*
1247306 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGTGATTTTCCATTTCGC
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGC
* * *
1247371 GTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
66 GTTGCGAGAGTTGAAAATCGCGTTGCGATTTTCCAATTC-CGATGCGATAGTTGAAAA
* *
1247429 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTCCATTTCG
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTCCATTTCG
* * * * *
1247493 CGTTGCGAGAGTCT-ACAGTTGTCGTTGCGATTTTCCAAATT-CGATGCGATAGTCT-ACAG
65 CGTTGCGAGAGT-TGAAAATCG-CGTTGCGATTTTCC-AATTCCGATGCGATAGT-TGAAAA
* * *
1247552 TTGTCGTTGCGATTTTCCAAATT--CGTTGTGATAGTTGAAAA
1 TCG-CGTTGCGATTTTCC-ATTTCGCGTTGCGATAGTTGAAAA
1247593 AAAGATTTTG
Statistics
Matches: 140, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
122 1 0.01
123 102 0.73
124 31 0.22
125 6 0.04
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (122 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGC
GTTGCGAGAGTTGAAAATCGCGTTGCGATTTTCCAATTCCGATGCGATAGTTGAAAA
Found at i:1247579 original size:19 final size:19
Alignment explanation
Indices: 1247514--1247579 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
1247504 TCTACAGTTG
1247514 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
* * * **
1247533 TCGATGCGATAGTCTACAGTT
1 TCGTTGCGAT--TTTCCAAAT
1247554 GTCGTTGCGATTTTCCAAAT
1 -TCGTTGCGATTTTCCAAAT
1247574 TCGTTG
1 TCGTTG
1247580 TGATAGTTGA
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 15 0.44
20 5 0.15
21 5 0.15
22 9 0.26
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:1247674 original size:6 final size:6
Alignment explanation
Indices: 1247663--1247701 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
1247653 GACACGTATT
1247663 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1247702 CGAGACGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1248216 original size:6 final size:6
Alignment explanation
Indices: 1248195--1248232 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
1248185 TCTCGTCTCG
1248195 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTC
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
1248233 ATACGTGTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.31
6 22 0.69
ACGTcount: A:0.00, C:0.18, G:0.53, T:0.29
Consensus pattern (6 bp):
GGTCGT
Found at i:1248363 original size:41 final size:41
Alignment explanation
Indices: 1248341--1248457 Score: 207
Period size: 41 Copynumber: 2.9 Consensus size: 41
1248331 ACAACTGTAG
*
1248341 ACTATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* *
1248382 ACTATCGCAACTCGAAATGGAAAATCACAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1248423 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
1248458 AATGGAAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:1248369 original size:20 final size:20
Alignment explanation
Indices: 1248344--1248477 Score: 108
Period size: 20 Copynumber: 6.6 Consensus size: 20
1248334 ACTGTAGACT
1248344 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGAAAA
** * **
1248364 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGA-AATGAAAA
* *
1248385 ATCGCAACTCGAAATGGAAA
1 ATCGCAACGCGAAATGAAAA
* ** * **
1248405 ATCACAACGCGATTTTCAACT
1 ATCGCAACGCGA-AATGAAAA
*
1248426 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGAAAA
1248446 ATCGCAACGCGAAATGGAAAA
1 ATCGCAACGCGAAAT-GAAAA
1248467 A-CGCAACGCGA
1 ATCGCAACGCGA
1248478 TTTTCAACTA
Statistics
Matches: 83, Mismatches: 28, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
20 51 0.61
21 32 0.39
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGAAAA
Found at i:1248450 original size:61 final size:61
Alignment explanation
Indices: 1248385--1248502 Score: 200
Period size: 61 Copynumber: 1.9 Consensus size: 61
1248375 ATTTTCAACT
* *
1248385 ATCGCAACTCGAAATGGAAAATCACAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAAAACACAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
* *
1248446 ATCGCAACGCGAAATGGAAAAACGCAACGCGATTTTCAACTATCGCAATGCGAAATG
1 ATCGCAACGCGAAATGGAAAAACACAACGCGATTTTCAACTATCGCAACGCGAAATG
1248503 CAACGTGAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (61 bp):
ATCGCAACGCGAAATGGAAAAACACAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
Found at i:1251935 original size:23 final size:23
Alignment explanation
Indices: 1251917--1251977 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
1251907 CTCGTATAAA
1251917 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
1251940 TGCACCGAAGTGCCGCATAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
1251963 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
1251978 TATAAAATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:1254035 original size:23 final size:23
Alignment explanation
Indices: 1253998--1254083 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
1253988 ACATATTATA
*
1253998 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* * *
1254021 TGGCACTTCGATGCATTTCTATG
1 TGGCACTTCGGTGCAATTCTACG
*
1254044 CGGTC-CTTCGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-C-AATTCTACG
1254068 TGGCACTTCGGTGCAA
1 TGGCACTTCGGTGCAA
1254084 ATTTATACGA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
22 1 0.02
23 30 0.61
24 17 0.35
25 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.29
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:1255827 original size:20 final size:20
Alignment explanation
Indices: 1255799--1255836 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1255789 TTTCCCTTTA
1255799 AGTGCATCGATACATTCTAT
1 AGTGCATCGATACATTCTAT
* *
1255819 AGTGTATCGATGCATTCT
1 AGTGCATCGATACATTCT
1255837 TTAACATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAT
Found at i:1255931 original size:64 final size:63
Alignment explanation
Indices: 1255844--1256004 Score: 166
Period size: 64 Copynumber: 2.5 Consensus size: 63
1255834 TCTTTAACAT
* * *
1255844 GTGCATCGATACACTACCCATGCATCGATACACAAATCACCTTCGATGTTT-TAATTTTAAGGGG
1 GTGCATCGATACACT-CCTATGCATCGATACACAAATCACATTCAATGTTTCTAATTTTAA-GGG
* * ** * *
1255908 GTGCATCGATACACTCCTTATGCATCGATGCACTAATTGCATTCAATGTTTCTATTTTTAATGG
1 GTGCATCGATACACTCC-TATGCATCGATACACAAATCACATTCAATGTTTCTAATTTTAAGGG
*
1255972 GTGCAT-GATGA-ACTTCCTGTGCATCGATACACA
1 GTGCATCGAT-ACAC-TCCTATGCATCGATACACA
1256005 CTGAACAATT
Statistics
Matches: 81, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
63 20 0.25
64 53 0.65
65 8 0.10
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (63 bp):
GTGCATCGATACACTCCTATGCATCGATACACAAATCACATTCAATGTTTCTAATTTTAAGGG
Found at i:1258542 original size:2 final size:2
Alignment explanation
Indices: 1258537--1258592 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
1258527 ACACACACAC
1258537 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
1258579 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1258593 CACGTGTCTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1261479 original size:182 final size:182
Alignment explanation
Indices: 1261207--1262494 Score: 985
Period size: 182 Copynumber: 7.2 Consensus size: 182
1261197 GGTTTTATCA
* *
1261207 TTTTGAGACCGATTTTATCATATTTTTACCTGTTATATTA-TTCTGGATCGATACATTTTCATAA
1 TTTTGAGACCAATTTTATCATATTTTTACCTGTTATATTAGTTAT-GATCGATACATTTTCATAA
* *
1261271 AGTGTCGACACTTTTTAAGCGCTATAAATTCTTCTATTTTAAATTCATAAAATGTCGATACTTAT
65 AGTGTCGACACTTTTTAAGCGCTATAAATTCTTCTATTTTAAATTCAGAAAATGTCGATACTAAT
* *
1261336 ATTAAATTATCGACACTTTCAACATATTCAGTTACTTTTTTC-GGTGTTGTCAT
130 ATTAAATTATCGACACTTTCAACATATCCAGTAAC-TTTTTCAGGTGTTGTCAT
* * * *
1261389 TTTTTAGACCTATTTTATCATATTTTTACCTGTTATATTAGTAATGATCGATACATTTTAATAAA
1 TTTTGAGACCAATTTTATCATATTTTTACCTGTTATATTAGTTATGATCGATACATTTTCATAAA
* * *
1261454 GTGTCGACACTTTTTAAGCGCTATAATTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTAATA
66 GTGTCGACACTTTTTAAGCGCTATAAATTCTTCTATTTTAAATTCAGAAAATGTCGATACTAATA
* * * * *
1261519 TTTAATTATCGACACTTTCAATATATCCGGTAACTTTTTCATGTTTTGTCAT
131 TTAAATTATCGACACTTTCAACATATCCAGTAACTTTTTCAGGTGTTGTCAT
*
1261571 TTTTGAGATCAATTTTATCATATTTTTACCTGTTATATT-GTTATGAATCGAT-CATTTTCATAA
1 TTTTGAGACCAATTTTATCATATTTTTACCTGTTATATTAGTTATG-ATCGATACATTTTCATAA
* * * * * * *
1261634 AGTGTCGACACTTTTT-A--G-TTTAATTTCAGAAAGTGTCGATACTTATATT---AAATTATCG
65 AGTGTCGACACTTTTTAAGCGCTATAAATTC------T-TCTAT-TTTAAATTCAGAAAATGTCG
* * ** * **** ** * * * * *
1261692 ACACT--T-TCAACA-TATC--CGGTATCGTTTTA-CTGGT---TTTGTCA-ATTTTGGGACCT
122 ATACTAATATTAA-ATTATCGACACTTTCAACATATCCAGTAACTTTTTCAGGTGTT--GTCAT
* ** * * * * ** * *
1261745 GTTTT---ATCATATTTT-T-A-CCTGTTA--TATTAT-TATAGAT-CGATATATT--TTTT-TT
1 -TTTTGAGACCA-ATTTTATCATATTTTTACCTGTTATAT-TAGTTATGATCGATACATTTTCAT
* * * * * * * *
1261797 AAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTT
63 AAAGTGTCGACACTTTTTAAGCGCTATAAATTCTTCTATTTTAAATTCAGAAAATGTCGATACTA
* * * * * * *
1261862 ATATTAAATTATCGACACTTTCAATATATCCGGTAGCGTTTTACTGGTTTTGTCAA
128 ATATTAAATTATCGACACTTTCAACATATCCAGTAAC-TTTTTCAGGTGTTGTCAT
*
1261918 TTTTGAGA-CATGTTTTATCATATTTTTACCTGTTATATT-GTTATGGATCGATACATTTTCATA
1 TTTTGAGACCA-ATTTTATCATATTTTTACCTGTTATATTAGTTAT-GATCGATACATTTTCATA
* * * * * *
1261981 AAGTGTCGACACTTTTTAAGCGCAATAACTTTTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
64 AAGTGTCGACACTTTTTAAGCGCTATAAATTCTTCTATTTTAAATTCAGAAAATGTCGATACTAA
* * * *
1262046 TATTAAATTATCGACACTTTTAACATATCCGGTAACTTTTTCCGGTTTTGTCAT
129 TATTAAATTATCGACACTTTCAACATATCCAGTAACTTTTTCAGGTGTTGTCAT
* * * *
1262100 TTTTGAGA-CATGTTTTATCATATTTTTACCTGTTATATTGGTAAGGATCGATACATTTTCATAA
1 TTTTGAGACCA-ATTTTATCATATTTTTACCTGTTATATTAGTTATGATCGATACATTTTCATAA
* * * * *
1262164 A-TGTCAACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTAAT
65 AGTGTCGACACTTTTTAAGCGCTATAAATTCTTCTATTTTAAATTCAGAAAATGTCGATACTAAT
* *
1262228 ATTAAATTATCGACACTTTCAATATATCC-GATAACTTTTTTC-GGTTTTGTCAT
130 ATTAAATTATCGACACTTTCAACATATCCAG-TAAC-TTTTTCAGGTGTTGTCAT
* * * * **
1262281 TTTTGAGACCAGTTTCATCATATTTTTACCTGTTATATT-GTTGTGGATCGATA-TTTTTTTTAA
1 TTTTGAGACCAATTTTATCATATTTTTACCTGTTATATTAGTTAT-GATCGATACATTTTCATAA
* * * * * * * *
1262344 AGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTAT
65 AGTGTCGACACTTTTTAAGCGCTATAAATTCTTCTATTTTAAATTCAGAAAATGTCGATACTAAT
* * * * *
1262409 ATTAAATTACCGACAC--TCAACACATATCCAGTAGCGTTTTACCGGTTTTGTCA-
130 ATTAAATTATCGACACTTTC-A-ACATATCCAGTAAC-TTTTTCAGGTGTTGTCAT
* ** * *
1262462 TTTTGGGACCGGTTTTGTCATATTTGTACCTGT
1 TTTTGAGACCAATTTTATCATATTTTTACCTGT
1262495 AGTATTGCTA
Statistics
Matches: 911, Mismatches: 133, Indels: 125
0.78 0.11 0.11
Matches are distributed among these distances:
161 6 0.01
162 3 0.00
163 1 0.00
164 11 0.01
165 17 0.02
166 6 0.01
167 12 0.01
168 8 0.01
169 16 0.02
170 8 0.01
171 1 0.00
172 13 0.01
173 13 0.01
174 14 0.02
175 10 0.01
176 5 0.01
177 19 0.02
178 3 0.00
179 14 0.02
180 21 0.02
181 296 0.32
182 305 0.33
183 100 0.11
184 3 0.00
185 6 0.01
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (182 bp):
TTTTGAGACCAATTTTATCATATTTTTACCTGTTATATTAGTTATGATCGATACATTTTCATAAA
GTGTCGACACTTTTTAAGCGCTATAAATTCTTCTATTTTAAATTCAGAAAATGTCGATACTAATA
TTAAATTATCGACACTTTCAACATATCCAGTAACTTTTTCAGGTGTTGTCAT
Found at i:1261969 original size:184 final size:184
Alignment explanation
Indices: 1261652--1262524 Score: 1185
Period size: 181 Copynumber: 4.8 Consensus size: 184
1261642 CACTTTTTAG
* *
1261652 TTTAATTTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTATCGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* * * * *
1261717 TTTACTGGTTTTGTCAATTTTGGGACCTGTTTTATCATATTTTTACCTGTTATATTATTATAGAT
66 TTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* *
1261782 CGATATATTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
131 CGATACATTTTTTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * *
1261836 TTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAATATATCCGGTAGCGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
*
1261901 TTTACTGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
66 TTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* * * * * *
1261966 CGATACA-TTTTCATAAAGTGTCGACACTTTTTAAGCGCAATAACTTTTTCTCT
131 CGATACATTTTTTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
*
1262019 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTTAACATATCCGGTAAC-T
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* * * *
1262083 TTTTCCGGTTTTGTCATTTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGGTAAGGAT
66 TTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* * * *
1262148 CGATACA-TTTTCATAAA-TGTCAACACTTTTTAGGCGCTATAACTTCTTCTCT
131 CGATACATTTTTTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * *
1262200 TTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAATATATCCGATAAC-T
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
** * * *
1262264 TTTTTCGGTTTTGTCATTTTTGAGACCA-GTTTCATCATATTTTTACCTGTTATATTGTTGTGGA
66 TTTACCGGTTTTGTCAATTTTGAGA-CATGTTTTATCATATTTTTACCTGTTATATTGTTATGGA
*
1262328 TCGAT--ATTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
130 TCGATACATTTTTTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * * *
1262381 TTTAAATTCAGAAAGTTTCGATACTTATATTAAATTACCGACAC--TCAACACATATCCAGTAGC
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTC-A-ACATATCCGGTAAC
* ** * * *
1262444 GTTTTACCGGTTTTGTC-ATTTTGGGACCGGTTTTGTCATATTTGTACCTG-TAGTATTGCTATG
64 GTTTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTA-TATTGTTATG
* *
1262507 GAGCGATCCATTTTTTAT
128 GATCGATACATTTTTTAT
1262525 TTGTATTGAC
Statistics
Matches: 617, Mismatches: 62, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
179 3 0.00
180 12 0.02
181 274 0.44
182 94 0.15
183 106 0.17
184 128 0.21
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (184 bp):
TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
TTTACCGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
CGATACATTTTTTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
Found at i:1262176 original size:529 final size:528
Alignment explanation
Indices: 1261172--1262520 Score: 1758
Period size: 529 Copynumber: 2.5 Consensus size: 528
1261162 TAATTCAGGA
* *
1261172 TCAACATATCTGGTATCTATTTACTGGTTTTATC-ATTTTGAGACCGATTTTATCATATTTTTAC
1 TCAACATATCCGGTATCT-TTTACTGGTTTTGTCAATTTTGAGACCG-TTTTATCATATTTTTAC
* * ** * * * *
1261236 CTGTTATATTATTCTGGATCGATACA-TTTTCATAAAGTGTCGACACTTTTTAAGCGCTATAAAT
64 CTGTTATATTATTATGGATCGATATATTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACT
* * * *
1261300 TCTTCTATTTTAAATTCATAAAATGTCGATACTTATATTAAATTATCGACACTTTCAACATATTC
129 TCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAACATA-TC
* * * * * * * *
1261365 AGTTA-CTTTTTTCGGTGTTGTCATTTTTTAGACCTATTTTATCATATTTTTACCTGTTATATTA
193 CGGTAGCGTTTTACGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATT-
* *
1261429 GTAAT-GATCGATACATTTTAATAAAGTGTCGACACTTTTTAAGCGCTATAATTTCTTCTCTTTT
257 GTTATGGATCGATACATTTTAATAAAGTGTCGACACTTTTTAAGCGCAATAATTTCTTCTCTTTT
* *
1261493 AAATTCAGAAAGTGTCGATACTAATATTTAATTATCGACACTTTCAATATATCCGGTAACTTTTT
322 AAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTT
* * *
1261558 CATGTTTTGTCATTTTTGAGATCAATTTTATCATATTTTTACCTGTTATATTGTTATGAATCGAT
387 CAGGTTTTGTCATTTTTGAGATCAATTTTATCATATTTTTACCTGTTATATTGGTAAGAATCGAT
* * *
1261623 CATTTTCATAAAGTGTCGACACTTTTTA-G-TTTAATTTCAGAAAGTGTCGATACTTATATTAAA
452 CATTTTCATAAAGTGTCAACACTTTTTAGGTTTTAAATTCAGAAAGTGTCGATACTAATATTAAA
1261686 TTATCGACACTT
517 TTATCGACACTT
*
1261698 TCAACATATCCGGTATCGTTTTACTGGTTTTGTCAATTTTGGGACCTGTTTTATCATATTTTTAC
1 TCAACATATCCGGTATC-TTTTACTGGTTTTGTCAATTTTGAGACC-GTTTTATCATATTTTTAC
*
1261763 CTGTTATATTATTATAGATCGATATATTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACT
64 CTGTTATATTATTATGGATCGATATATTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACT
*
1261828 TCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAATATATCC
129 TCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAACATATCC
*
1261893 GGTAGCGTTTTACTGGTTTTGTCAATTTTGAGACATGTTTTATCATATTTTTACCTGTTATATTG
194 GGTAGCGTTTTAC-GGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTG
*
1261958 TTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCAATAACTTT-TTCTCTTTT
258 TTATGGATCGATACATTTTAATAAAGTGTCGACACTTTTTAAGCGCAATAA-TTTCTTCTCTTTT
* *
1262022 AAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTTAACATATCCGGTAACTTTTT
322 AAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTT
* * *
1262087 CCGGTTTTGTCATTTTTGAGA-CATGTTTTATCATATTTTTACCTGTTATATTGGTAAGGATCGA
387 CAGGTTTTGTCATTTTTGAGATCA-ATTTTATCATATTTTTACCTGTTATATTGGTAAGAATCGA
1262151 TACATTTTCATAAA-TGTCAACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAG
451 T-CATTTTCATAAAGTGTCAACACTTTTTA-G-G---------------TTTTAAATTCAGAAAG
1262215 TGTCGATACTAATATTAAATTATCGACACTT
498 TGTCGATACTAATATTAAATTATCGACACTT
* * * * * *
1262246 TCAATATATCCGATAACTTTT-TTCGGTTTTGTCATTTTTGAGACCAGTTTCATCATATTTTTAC
1 TCAACATATCCGGTATCTTTTACT-GGTTTTGTCAATTTTGAGACC-GTTTTATCATATTTTTAC
* *
1262310 CTGTTATATTGTTGTGGATCG--ATATTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACT
64 CTGTTATATTATTATGGATCGATATATTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACT
*
1262373 TCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTATATTAAATTACCGACAC--TCAACACATAT
129 TCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTTTC-A-ACATAT
* * * * *
1262436 CCAGTAGCGTTTTACCGGTTTTGTC-ATTTTGGGACCGGTTTTGTCATATTTGTACCTG-TAGTA
192 CCGGTAGCGTTTTA-CGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTA-TA
* * *
1262499 TTGCTATGGAGCGATCCATTTT
255 TTGTTATGGATCGATACATTTT
1262521 TTATTTGTAT
Statistics
Matches: 725, Mismatches: 64, Indels: 50
0.86 0.08 0.06
Matches are distributed among these distances:
526 30 0.04
527 56 0.08
528 102 0.14
529 229 0.32
530 15 0.02
532 1 0.00
543 4 0.01
544 50 0.07
545 120 0.17
546 2 0.00
547 58 0.08
548 58 0.08
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (528 bp):
TCAACATATCCGGTATCTTTTACTGGTTTTGTCAATTTTGAGACCGTTTTATCATATTTTTACCT
GTTATATTATTATGGATCGATATATTTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTC
TTCTCTTTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGG
TAGCGTTTTACGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTA
TGGATCGATACATTTTAATAAAGTGTCGACACTTTTTAAGCGCAATAATTTCTTCTCTTTTAAAT
TCAGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTTCAGG
TTTTGTCATTTTTGAGATCAATTTTATCATATTTTTACCTGTTATATTGGTAAGAATCGATCATT
TTCATAAAGTGTCAACACTTTTTAGGTTTTAAATTCAGAAAGTGTCGATACTAATATTAAATTAT
CGACACTT
Found at i:1262474 original size:20 final size:21
Alignment explanation
Indices: 1262449--1262487 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1262439 GTAGCGTTTT
1262449 ACCGGTTTTGTCAT-TTTGGG
1 ACCGGTTTTGTCATATTTGGG
1262469 ACCGGTTTTGTCATATTTG
1 ACCGGTTTTGTCATATTTG
1262488 TACCTGTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.13, C:0.15, G:0.26, T:0.46
Consensus pattern (21 bp):
ACCGGTTTTGTCATATTTGGG
Found at i:1272661 original size:30 final size:31
Alignment explanation
Indices: 1272606--1272670 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
1272596 ACTTAACGCG
* *
1272606 TTTAGTACTTAAACTACCAGTTTTGGTATGT
1 TTTAGTACTCAAACTACCAGCTTTGGTATGT
*
1272637 TTTAGTA-TCAAACTATCAGCTTTGGTATGT
1 TTTAGTACTCAAACTACCAGCTTTGGTATGT
1272667 TTTA
1 TTTA
1272671 TTACATAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.46
Consensus pattern (31 bp):
TTTAGTACTCAAACTACCAGCTTTGGTATGT
Found at i:1279773 original size:3 final size:3
Alignment explanation
Indices: 1279765--1279844 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
1279755 CCGTGTTCAC
1279765 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1279813 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1279845 CTCCCCATTT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:1282333 original size:28 final size:28
Alignment explanation
Indices: 1282276--1282333 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
1282266 AAAATTTATC
* * * *
1282276 TTTTTGGTCAAAATAGATACCTTAAGTA
1 TTTTTGATCAAAATAGACACCTAAAATA
1282304 TTTTTGATCAAAATATG-CACCTAAAATA
1 TTTTTGATCAAAATA-GACACCTAAAATA
1282332 TT
1 TT
1282334 CAATTTTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (28 bp):
TTTTTGATCAAAATAGACACCTAAAATA
Found at i:1285364 original size:102 final size:102
Alignment explanation
Indices: 1285188--1285491 Score: 331
Period size: 102 Copynumber: 3.0 Consensus size: 102
1285178 TGAATCATCG
* * * * *
1285188 ATCGGGGCCGACCAGAAGCATCATCGACAGCAGCGTTTCTTTGCTGGGGGAATCGGCCTGTTATG
1 ATCGGGGCCGACCAGAAGCATCATCAACAGCAGCGTTTCTTTGCTAGGGGAATCAGCCTCTTAAG
* * *
1285253 GTGTTGCGCCGCTATATATAGGGGTGAATAGAACTCA
66 GTGTTGCGCCGCTATATATAAGAGTGAATAAAACTCA
* * *
1285290 ATCGGGGCCGACCGGAAGCATTATCAATAGCAGCGTTTCTTTGCTAGGGGAATCAGCCTCTTAAG
1 ATCGGGGCCGACCAGAAGCATCATCAACAGCAGCGTTTCTTTGCTAGGGGAATCAGCCTCTTAAG
*
1285355 GTGTTGCGCCGCTATATATAAGAGTGAATAAAACTCG
66 GTGTTGCGCCGCTATATATAAGAGTGAATAAAACTCA
* * ** * ** * ** ** * * * *
1285392 ATCGGAGTCGATTACAAGTTTCATTAGTATTAACGTTTCTTTGCT-GGGGAATCAGCTTGTTACG
1 ATCGGGGCCGACCAGAAGCATCATCAACAGCAGCGTTTCTTTGCTAGGGGAATCAGCCTCTTAAG
* *
1285456 GTGTTGCCCCGCTATATACAAGAGTGAATAAAACTC
66 GTGTTGCGCCGCTATATATAAGAGTGAATAAAACTC
1285492 TATTAGATTC
Statistics
Matches: 171, Mismatches: 31, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
101 50 0.29
102 121 0.71
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (102 bp):
ATCGGGGCCGACCAGAAGCATCATCAACAGCAGCGTTTCTTTGCTAGGGGAATCAGCCTCTTAAG
GTGTTGCGCCGCTATATATAAGAGTGAATAAAACTCA
Found at i:1291048 original size:15 final size:15
Alignment explanation
Indices: 1291028--1291061 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1291018 TTTAGCTGGA
*
1291028 CGGGCGGATGTGGGG
1 CGGGCGGATGCGGGG
1291043 CGGGCGGATGCGGGG
1 CGGGCGGATGCGGGG
1291058 CGGG
1 CGGG
1291062 TAATGTCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.18, G:0.68, T:0.09
Consensus pattern (15 bp):
CGGGCGGATGCGGGG
Found at i:1298680 original size:69 final size:69
Alignment explanation
Indices: 1298569--1298706 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 69
1298559 GCAGCAAGAT
* * * *
1298569 ATTCTCATGATCATGTTTTGAGCATTAATGATTCTGTTGAGAATATGCGTCATGCTTTGGTGGGT
1 ATTCTCATGACCATGTCTTGAACATTAATGATTCTGTTGAGAATATACGTCATGCTTTGGTGGGT
1298634 GATA
66 GATA
* * *
1298638 ATTCTCATGGCCATGTCTTGAATATTAATGATTCTGTTGAGAATATACGTCATGCTTTGGTTGGT
1 ATTCTCATGACCATGTCTTGAACATTAATGATTCTGTTGAGAATATACGTCATGCTTTGGTGGGT
1298703 GATA
66 GATA
1298707 GTGCCGTGGC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (69 bp):
ATTCTCATGACCATGTCTTGAACATTAATGATTCTGTTGAGAATATACGTCATGCTTTGGTGGGT
GATA
Found at i:1302246 original size:24 final size:25
Alignment explanation
Indices: 1302214--1302260 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
1302204 ATATTCTTTT
*
1302214 ACTTCAATCAAGC-TCGAATTTTAG
1 ACTTAAATCAAGCTTCGAATTTTAG
* *
1302238 ACTTAAATCGAGCTTCTAATTTT
1 ACTTAAATCAAGCTTCGAATTTT
1302261 TTTTTTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (25 bp):
ACTTAAATCAAGCTTCGAATTTTAG
Found at i:1310729 original size:23 final size:23
Alignment explanation
Indices: 1310698--1310789 Score: 112
Period size: 23 Copynumber: 4.0 Consensus size: 23
1310688 CACCACAGCT
* *
1310698 CGTATAATTGCACCGAAGTACCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
1310721 CATAGAATTGCACCGGAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
1310744 CGTAGAATTGCACCAAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
* *
1310767 CGTAGAATTGTACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1310790 TATAATAATG
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1310930 original size:103 final size:103
Alignment explanation
Indices: 1310805--1311017 Score: 381
Period size: 103 Copynumber: 2.1 Consensus size: 103
1310795 TAATGTCCAT
* *
1310805 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1310870 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
1310908 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATTAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
1310973 GACTTCACACATGTTTCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1311011 AAGGACC
1 AAGGACC
1311018 GTGTAGACCC
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1312399 original size:22 final size:21
Alignment explanation
Indices: 1312367--1312426 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
1312357 TTCGCTTGAG
*
1312367 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCC-TTGAAT
* *
1312389 GTGTACTGATT-CCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
1312409 GGGTACCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
1312427 CCCAGAAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 15 0.47
21 9 0.28
22 8 0.25
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.33
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:1314128 original size:2 final size:2
Alignment explanation
Indices: 1314121--1314154 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1314111 ACACAAAGTA
1314121 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
1314155 GCATGTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1317451 original size:20 final size:21
Alignment explanation
Indices: 1317426--1317477 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1317416 TTTTCCCAAT
*
1317426 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1317446 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1317467 TCGCAATGCGA
1 TCGCAATGCGA
1317478 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1317491 original size:20 final size:20
Alignment explanation
Indices: 1317466--1317579 Score: 111
Period size: 20 Copynumber: 5.7 Consensus size: 20
1317456 AATTGGGAAA
*
1317466 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
1317486 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
1317506 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
1317527 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
1317547 TTTGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
1317567 TTCGCAACGCGAT
1 ATCGCAACGCGAT
1317580 TTACTTAGCG
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
20 64 0.82
21 14 0.18
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1317510 original size:61 final size:61
Alignment explanation
Indices: 1317463--1317579 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
1317453 GCGAATTGGG
* * * *
1317463 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAA
* * * *
1317524 AAAATCGCAACGAGATACTTACTTTTGCAACGCGATACTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
1317580 TTACTTAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAA
Found at i:1318147 original size:19 final size:19
Alignment explanation
Indices: 1318104--1318168 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
1318094 CGAGAATGAG
* *
1318104 AATCGCAACGCGGAAATGAC
1 AATCGCAACGC-GAAATAAA
*
1318124 TATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
**
1318143 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAATAAA
1318162 AATCGCA
1 AATCGCA
1318169 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 29 0.74
20 10 0.26
ACGTcount: A:0.45, C:0.26, G:0.18, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATAAA
Found at i:1318186 original size:19 final size:19
Alignment explanation
Indices: 1318164--1318366 Score: 210
Period size: 19 Copynumber: 11.1 Consensus size: 19
1318154 GAAACCAAAA
*
1318164 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1318183 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1318202 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1318221 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1318240 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
1318260 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
1318276 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
1318293 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
1318307 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
1318326 CCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
1318345 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1318365 TC
1 TC
1318367 AACCAAAGAC
Statistics
Matches: 157, Mismatches: 15, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
14 20 0.13
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 94 0.60
20 35 0.22
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1318260 original size:39 final size:38
Alignment explanation
Indices: 1318164--1318366 Score: 210
Period size: 39 Copynumber: 5.6 Consensus size: 38
1318154 GAAACCAAAA
* *
1318164 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1318202 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
1318240 TCGCGGTTGCGATTTTCATTTCGCGTTGCGATTGTC---
1 TCGC-GTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* **
1318276 T-G-GTCGCGATAGTCATTTCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* ** * *
1318307 TCTCGTTGCGATAGTCATTCCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
1318345 ATCTCGTTGCGATTTTCATTTC
1 -TCGCGTTGCGATTTTCATTTC
1318367 AACCAAAGAC
Statistics
Matches: 142, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
31 3 0.02
33 47 0.33
35 3 0.02
36 1 0.01
38 40 0.28
39 48 0.34
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:1318292 original size:33 final size:33
Alignment explanation
Indices: 1318255--1318341 Score: 138
Period size: 33 Copynumber: 2.6 Consensus size: 33
1318245 GTTGCGATTT
* *
1318255 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
1318288 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
1318321 TCATTCCGCGTTGCGATTCTC
1 TCATTTCGCGTTGCGATTCTC
1318342 ATTATCTCGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.38
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:1320442 original size:42 final size:42
Alignment explanation
Indices: 1320360--1320482 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 42
1320350 GCCCGACTCG
* * *
1320360 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * * *
1320402 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAGGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
1320444 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
1320483 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 60 0.94
43 4 0.06
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:1321856 original size:14 final size:14
Alignment explanation
Indices: 1321837--1321872 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1321827 ATTGTTTAAT
1321837 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
1321851 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
1321865 TGATTTGT
1 TGATTTGT
1321873 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:1322073 original size:19 final size:19
Alignment explanation
Indices: 1322051--1322172 Score: 182
Period size: 19 Copynumber: 6.7 Consensus size: 19
1322041 CGAAATTAAA
*
1322051 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
1322070 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
1322089 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
1322108 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
1322127 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
1322143 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
1322160 TTCACATTGCGAT
1 TTCGCATTGCGAT
1322173 AGTAATTTCC
Statistics
Matches: 94, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
14 6 0.06
16 7 0.07
17 6 0.06
19 75 0.80
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:1322181 original size:52 final size:54
Alignment explanation
Indices: 1322068--1322192 Score: 146
Period size: 52 Copynumber: 2.3 Consensus size: 54
1322058 TGCGATTTTC
* * ** *
1322068 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTCATCTCG-ATTGCGATTTTCATTTCACATTGCGATAGTA
1322125 ATTTCGCATTGCGATTC-TCTCG-TTGCGATTTTCATTTCACATTGCGATAGTA
1 ATTTCGCATTGCGATTCATCTCGATTGCGATTTTCATTTCACATTGCGATAGTA
*
1322177 ATTTCCGCGTTGCGAT
1 ATTT-CGCATTGCGAT
1322193 GGACATTAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
52 30 0.49
53 10 0.16
54 4 0.07
55 3 0.05
57 14 0.23
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.44
Consensus pattern (54 bp):
ATTTCGCATTGCGATTCATCTCGATTGCGATTTTCATTTCACATTGCGATAGTA
Found at i:1325777 original size:20 final size:20
Alignment explanation
Indices: 1325752--1325802 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1325742 ATTCATTTGA
1325752 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGTGAAAATGG
1325772 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGTGAAAATGG
*
1325792 TTATCGCAACG
1 CTATCGCAACG
1325803 AGAATATCGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (20 bp):
CTATCGCAACGTGAAAATGG
Found at i:1325852 original size:14 final size:14
Alignment explanation
Indices: 1325833--1325886 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
1325823 GATAATCGCA
1325833 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
1325847 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
1325864 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
1325880 TTGCGAT
1 TTGCGAT
1325887 AGCCATTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:1325870 original size:33 final size:33
Alignment explanation
Indices: 1325828--1325905 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
1325818 GAAATGATAA
***
1325828 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1325861 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
1325894 TCGCGTTGCGAT
1 TCGCATTGCGAT
1325906 AGTCTGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:1326012 original size:14 final size:14
Alignment explanation
Indices: 1325993--1326029 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1325983 CATCAATTAA
1325993 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1326007 ACAAATCATCTTTT
1 ACAAATCAACATTT
1326021 ACAAATCAA
1 ACAAATCAA
1326030 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1326595 original size:14 final size:14
Alignment explanation
Indices: 1326576--1326612 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1326566 CATCAATTAA
1326576 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1326590 ACAAATCATCTTTT
1 ACAAATCAACATTT
1326604 ACAAATCAA
1 ACAAATCAA
1326613 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1328510 original size:20 final size:19
Alignment explanation
Indices: 1328475--1328529 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 19
1328465 GAAACTTAAA
1328475 ATCGCAACGCGAAATGGCT
1 ATCGCAACGCGAAATGGCT
1328494 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGGCT
*
1328514 ATCGCAATGCGAAATG
1 ATCGCAACGCGAAATG
1328530 AAAATCGCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.33, C:0.24, G:0.27, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGGCT
Found at i:1328536 original size:19 final size:19
Alignment explanation
Indices: 1328456--1328573 Score: 86
Period size: 20 Copynumber: 6.4 Consensus size: 19
1328446 TAGTTTACTT
* *
1328456 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
***
1328476 TCGCAACGCGAAATGGCTA
1 TCGCAACGCGAAATGAAAA
***
1328495 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
1328515 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1328534 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
1328548 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
1328566 TCGCAACG
1 TCGCAACG
1328574 ACAAAATCGC
Statistics
Matches: 81, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 2 0.02
17 2 0.02
18 12 0.15
19 24 0.30
20 30 0.37
ACGTcount: A:0.41, C:0.25, G:0.21, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1328549 original size:14 final size:14
Alignment explanation
Indices: 1328530--1328587 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1328520 ATGCGAAATG
1328530 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1328544 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
1328560 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
1328576 AAAATCGCAACG
1 AAAATCGCAACG
1328588 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1328572 original size:32 final size:33
Alignment explanation
Indices: 1328514--1328592 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
1328504 GGAAATGGCT
*
1328514 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1328547 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1328579 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1328593 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:1328621 original size:19 final size:17
Alignment explanation
Indices: 1328599--1328694 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 17
1328589 GAAACACAAA
1328599 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
1328618 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
1328634 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
1328650 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
1328666 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
1328683 TCGCATTGCGAT
1 TCGC-TTGCGAT
1328695 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 4 0.06
18 13 0.21
19 16 0.25
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:1328640 original size:14 final size:14
Alignment explanation
Indices: 1328621--1328678 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1328611 TTTCATTTCG
1328621 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1328635 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1328651 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
1328667 CGTTGCGATTTT
1 CGTTGCGATTTT
1328679 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1328685 original size:33 final size:33
Alignment explanation
Indices: 1328604--1328694 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
1328594 ACAAATCGCA
1328604 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1328637 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
1328669 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
1328695 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:1328723 original size:20 final size:19
Alignment explanation
Indices: 1328679--1328732 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
1328669 TTGCGATTTT
*
1328679 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1328698 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
* *
1328718 CTTTTCGTGTTGCGA
1 CATTTCGCGTTGCGA
1328733 AAGTAAACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1329230 original size:18 final size:18
Alignment explanation
Indices: 1329204--1329248 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1329194 GTAGATCAGA
*
1329204 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
1329222 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
1329240 TGATGGCTC
1 TGATGGCTC
1329249 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:1330586 original size:20 final size:20
Alignment explanation
Indices: 1330561--1330598 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1330551 AATAGCTTCT
1330561 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
1330581 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
1330599 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:1330887 original size:22 final size:22
Alignment explanation
Indices: 1330862--1330903 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1330852 GATTTAGATA
1330862 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1330884 GACGGATTTCGTCGGAGATG
1 GACGGATTTCGCCGGAGATG
1330904 AGTGAGAGAG
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:0.19, C:0.17, G:0.43, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1331118 original size:20 final size:20
Alignment explanation
Indices: 1331093--1331145 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
1331083 GATTATGTAT
*
1331093 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
1331113 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
1331133 TATCTCGTTGCGA
1 TATCGCGTTGCGA
1331146 TTTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:1331200 original size:20 final size:20
Alignment explanation
Indices: 1331156--1331248 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
1331146 TTTTTTATTA
* **
1331156 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
1331177 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
1331197 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
1331218 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
1331238 TCGCATTGCGA
1 TCGCATTGCGA
1331249 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:1331201 original size:41 final size:41
Alignment explanation
Indices: 1331138--1331251 Score: 185
Period size: 41 Copynumber: 2.8 Consensus size: 41
1331128 GTAAGTATCT
* *
1331138 CGTTGCGATTT-TTTATTATCGCATTGCGATTTTCCCAATTCG
1 CGTTGCGATTTACTTA-T-TCGCATTGCGAATTTCCCAATTCG
1331180 CGTTGCGATTTACTTATTCGCATTGCGAATTTCCCAATTCG
1 CGTTGCGATTTACTTATTCGCATTGCGAATTTCCCAATTCG
1331221 CGTTGCGATTTACTTATTCGCATTGCGAATT
1 CGTTGCGATTTACTTATTCGCATTGCGAATT
1331252 GGGAAAATCG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
41 54 0.78
42 12 0.17
43 3 0.04
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (41 bp):
CGTTGCGATTTACTTATTCGCATTGCGAATTTCCCAATTCG
Found at i:1331589 original size:2 final size:2
Alignment explanation
Indices: 1331582--1331609 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1331572 AATTTTCTTA
1331582 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
1331610 CATGTCGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1332600 original size:2 final size:2
Alignment explanation
Indices: 1332593--1332670 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
1332583 TTTAAATTCG
1332593 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
1332635 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
1332671 CGGTTTTTTA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1342909 original size:29 final size:29
Alignment explanation
Indices: 1342867--1342944 Score: 147
Period size: 29 Copynumber: 2.7 Consensus size: 29
1342857 GCTTCCCATT
1342867 GTAGGTCGCCATGCACTCCTGGCGACCTA
1 GTAGGTCGCCATGCACTCCTGGCGACCTA
*
1342896 GTAGGTCGCCATGCACTCCTGGCGACCTT
1 GTAGGTCGCCATGCACTCCTGGCGACCTA
1342925 GTAGGTCGCCATGCACTCCT
1 GTAGGTCGCCATGCACTCCT
1342945 CCTGCTCCTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.15, C:0.35, G:0.27, T:0.23
Consensus pattern (29 bp):
GTAGGTCGCCATGCACTCCTGGCGACCTA
Found at i:1343051 original size:14 final size:14
Alignment explanation
Indices: 1343005--1343043 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
1342995 CTCGAATGGT
1343005 CTCGGTCGGATGCC
1 CTCGGTCGGATGCC
1343019 CTCGGTCGGATGCC
1 CTCGGTCGGATGCC
1343033 CTCGGTCGGAT
1 CTCGGTCGGAT
1343044 AGCTTCGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.08, C:0.33, G:0.36, T:0.23
Consensus pattern (14 bp):
CTCGGTCGGATGCC
Found at i:1344494 original size:15 final size:15
Alignment explanation
Indices: 1344474--1344510 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
1344464 TGAGACATTA
*
1344474 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
1344489 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
1344504 CCCGCCC
1 CCCGCCC
1344511 AGCTAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.70, G:0.16, T:0.05
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:1368402 original size:2 final size:2
Alignment explanation
Indices: 1368397--1368435 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
1368387 TCTCTCTCTC
* * *
1368397 TA TA TA TA TA TA TA TG TA TA TA TG TA TA TA TG 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
1368436 GTACGTGTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1368408 original size:8 final size:8
Alignment explanation
Indices: 1368397--1368438 Score: 75
Period size: 8 Copynumber: 5.2 Consensus size: 8
1368387 TCTCTCTCTC
*
1368397 TATATATA
1 TATATATG
1368405 TATATATG
1 TATATATG
1368413 TATATATG
1 TATATATG
1368421 TATATATG
1 TATATATG
1368429 TATATATG
1 TATATATG
1368437 TA
1 TA
1368439 CGTGTGAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (8 bp):
TATATATG
Found at i:1380562 original size:65 final size:65
Alignment explanation
Indices: 1380402--1380562 Score: 204
Period size: 64 Copynumber: 2.5 Consensus size: 65
1380392 TTGTTTAAGG
* * * **
1380402 TGCATCGATGCACATGCAGTGCATCGATGCAT--GAATTTAAATAGAAAACATCGAATAGGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATAGAAAACATCGAATAGGATTT
1380465 A
65 A
*
1380466 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
*
1380530 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
1380563 ACCTTTATTA
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
63 1 0.01
64 62 0.72
65 22 0.26
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
Found at i:1381907 original size:22 final size:22
Alignment explanation
Indices: 1381862--1381941 Score: 144
Period size: 22 Copynumber: 3.7 Consensus size: 22
1381852 AGGGTTTTAT
*
1381862 AGGTCCTTCGGGACA-ACTCAC
1 AGGTCCTTCGGGACATATTCAC
1381883 AGGTCCTTCGGGACATATTCAC
1 AGGTCCTTCGGGACATATTCAC
1381905 AGGTCCTTCGGGACATATTCAC
1 AGGTCCTTCGGGACATATTCAC
1381927 AGGTCCTTCGGGACA
1 AGGTCCTTCGGGACA
1381942 AATTTCATAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
21 15 0.26
22 42 0.74
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (22 bp):
AGGTCCTTCGGGACATATTCAC
Found at i:1385267 original size:64 final size:63
Alignment explanation
Indices: 1385182--1385342 Score: 209
Period size: 64 Copynumber: 2.5 Consensus size: 63
1385172 TTGTTTAAGG
* * * *
1385182 TGCATCGATGCACATGCAGTGCATCGATGCATGA-ATTTAAATAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCACA-TTAAATA-AAAACATCGAATAGGATTTA
*
1385246 TGCATCGATGCATAAGGAGTGCATCGATGCATCACCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCA-CATTAAATAAAAACATCGAATAGGATTTA
*
1385310 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
1385343 ACCTTCATTA
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
63 1 0.01
64 63 0.72
65 22 0.25
66 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCACATTAAATAAAAACATCGAATAGGATTTA
Found at i:1386685 original size:22 final size:21
Alignment explanation
Indices: 1386635--1386698 Score: 101
Period size: 22 Copynumber: 3.0 Consensus size: 21
1386625 AGTCGAGGGT
*
1386635 TTCATAGGTCCTTCGGGACAA
1 TTCACAGGTCCTTCGGGACAA
*
1386656 CTCACAGGTCCTTCGGGACATA
1 TTCACAGGTCCTTCGGGACA-A
1386678 TTCACAGGTCCTTCGGGACAA
1 TTCACAGGTCCTTCGGGACAA
1386699 ATTTCATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 19 0.49
22 20 0.51
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (21 bp):
TTCACAGGTCCTTCGGGACAA
Found at i:1400261 original size:27 final size:27
Alignment explanation
Indices: 1400231--1400285 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
1400221 TGGCAAACTG
1400231 TAGCTATAGATAATCCCTTGGGAACAT
1 TAGCTATAGATAATCCCTTGGGAACAT
* *
1400258 TAGCTATGGATAATCCCTTTGGAACAT
1 TAGCTATAGATAATCCCTTGGGAACAT
1400285 T
1 T
1400286 CTTTCTGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (27 bp):
TAGCTATAGATAATCCCTTGGGAACAT
Found at i:1401776 original size:11 final size:11
Alignment explanation
Indices: 1401755--1401820 Score: 51
Period size: 11 Copynumber: 5.4 Consensus size: 11
1401745 TACGATACAT
1401755 ATATTTATTTTC
1 ATATTT-TTTTC
1401767 ATATTTTTTTC
1 ATATTTTTTTC
* *
1401778 ATATGTGTTATACATA
1 ATAT-T-TT-T--TTC
1401794 AATATTTTTTTC
1 A-TATTTTTTTC
1401806 ATATTTTTTTC
1 ATATTTTTTTC
1401817 ATAT
1 ATAT
1401821 GTGATATATA
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
11 23 0.52
12 9 0.20
13 2 0.05
14 2 0.05
15 2 0.05
16 3 0.07
17 3 0.07
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (11 bp):
ATATTTTTTTC
Found at i:1405970 original size:41 final size:42
Alignment explanation
Indices: 1405915--1406005 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 42
1405905 TATGTTTTAT
* * *
1405915 TAAAATAAAAATATTA-TACATTATATTAA-TATTTATTAAAA
1 TAAAATAAAAATATTATTA-AGTATATTAATTACTTAATAAAA
* *
1405956 TAAAATTAATATATTATTAAGTATATTAATTACTTAATAAAA
1 TAAAATAAAAATATTATTAAGTATATTAATTACTTAATAAAA
1405998 TAATAATA
1 TAA-AATA
1406006 TTATTAAACT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
41 23 0.56
42 15 0.37
43 3 0.07
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (42 bp):
TAAAATAAAAATATTATTAAGTATATTAATTACTTAATAAAA
Found at i:1406097 original size:27 final size:27
Alignment explanation
Indices: 1406067--1406127 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
1406057 GGAATATATT
* *
1406067 AATAATATTTTATTA-AAATGATATCAA
1 AATAATATATTAATATAAATGATAT-AA
* *
1406094 AATAATATATTAATATTAATTATATAA
1 AATAATATATTAATATAAATGATATAA
1406121 AATAATA
1 AATAATA
1406128 ATGTTTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (27 bp):
AATAATATATTAATATAAATGATATAA
Found at i:1409128 original size:100 final size:100
Alignment explanation
Indices: 1408946--1409146 Score: 339
Period size: 100 Copynumber: 2.0 Consensus size: 100
1408936 TTTTATATTT
1408946 TTAACACGTTTTCGATCTTTTGATTGTTCTTTTCGTTTATTTGTTATTATAATTATCTTCTCTAC
1 TTAACACGTTTTCGATCTTTTGATTGTTCTTTTCGTTTATTTGTTATTATAATTATCTTCTCTAC
* *
1409011 TTTAGAATCTCATATTGGACTTGGATACCTTGTTG
66 TTTAGAATCTCAGATTGGACTTGAATACCTTGTTG
* *
1409046 TTAACACGTTTTCGATCTTTTGATTGTTTTTTTCTTTTATTTGTTATTATAATTATCTTCTCTAC
1 TTAACACGTTTTCGATCTTTTGATTGTTCTTTTCGTTTATTTGTTATTATAATTATCTTCTCTAC
* * *
1409111 TTTAGACTCTCGGATTGGATTTGAATACCTTGTTG
66 TTTAGAATCTCAGATTGGACTTGAATACCTTGTTG
1409146 T
1 T
1409147 GTTATTGAAT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 94 1.00
ACGTcount: A:0.19, C:0.14, G:0.13, T:0.53
Consensus pattern (100 bp):
TTAACACGTTTTCGATCTTTTGATTGTTCTTTTCGTTTATTTGTTATTATAATTATCTTCTCTAC
TTTAGAATCTCAGATTGGACTTGAATACCTTGTTG
Found at i:1409752 original size:28 final size:28
Alignment explanation
Indices: 1409720--1409778 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
1409710 TCTAGAGTTT
1409720 GCTCTCTTACGAATCATACACGAGGAAA
1 GCTCTCTTACGAATCATACACGAGGAAA
*
1409748 GCTCTCTTATGAATCATACACGAGGAAA
1 GCTCTCTTACGAATCATACACGAGGAAA
1409776 GCT
1 GCT
1409779 TGTCCCCTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (28 bp):
GCTCTCTTACGAATCATACACGAGGAAA
Found at i:1409973 original size:31 final size:31
Alignment explanation
Indices: 1409811--1409965 Score: 220
Period size: 31 Copynumber: 5.0 Consensus size: 31
1409801 AAAAACTTGC
* *
1409811 CTCATTTGAATAAAGTGATAAACTGAATGGG
1 CTCATTTGAATAAACTGATAAACTGAAGGGG
* * *
1409842 TTCATTTGAATAAAGTAATAAACTGAAGGGG
1 CTCATTTGAATAAACTGATAAACTGAAGGGG
* * * *
1409873 CACATTTGAATACATTGATACACTGAAGGGG
1 CTCATTTGAATAAACTGATAAACTGAAGGGG
1409904 CTCATTTGAATAAACTGATAAACTGAAGGGG
1 CTCATTTGAATAAACTGATAAACTGAAGGGG
*
1409935 CTCATTTGAATAAACTGACAAACTGAAGGGG
1 CTCATTTGAATAAACTGATAAACTGAAGGGG
1409966 TTTATTTGGA
Statistics
Matches: 110, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (31 bp):
CTCATTTGAATAAACTGATAAACTGAAGGGG
Found at i:1410146 original size:71 final size:73
Alignment explanation
Indices: 1410057--1410197 Score: 250
Period size: 71 Copynumber: 2.0 Consensus size: 73
1410047 ATCCAAGGTG
*
1410057 GAGTAGCACTAAATGAAAGGAAACGGCACCGTTTTTCTTGAATGACAAAAAG-GGG-AAAATGGC
1 GAGTAGCACTAAATGAAAGGAAACGGCACCGTTTTTCTTGAAGGACAAAAAGAGGGAAAAATGGC
1410120 CCATGGTA
66 CCATGGTA
*
1410128 GAGTAGCACTAGATGAAAGGAAACGGCACCGTTTTTCTTGAAGGACAAAAAGAGGGAAAAATGGC
1 GAGTAGCACTAAATGAAAGGAAACGGCACCGTTTTTCTTGAAGGACAAAAAGAGGGAAAAATGGC
1410193 CCATG
66 CCATG
1410198 CAGGTCTCGA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
71 50 0.76
72 3 0.05
73 13 0.20
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.18
Consensus pattern (73 bp):
GAGTAGCACTAAATGAAAGGAAACGGCACCGTTTTTCTTGAAGGACAAAAAGAGGGAAAAATGGC
CCATGGTA
Found at i:1412631 original size:16 final size:16
Alignment explanation
Indices: 1412606--1412662 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
1412596 AACGTTTATA
1412606 TTCGTTTATGTTCGTG
1 TTCGTTTATGTTCGTG
*
1412622 TTCATTTATGTTCGTG
1 TTCGTTTATGTTCGTG
*
1412638 TTCGTTTATATTCGTG
1 TTCGTTTATGTTCGTG
1412654 TTCGTTTAT
1 TTCGTTTAT
1412663 TTATTAAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.11, C:0.12, G:0.19, T:0.58
Consensus pattern (16 bp):
TTCGTTTATGTTCGTG
Found at i:1418557 original size:215 final size:215
Alignment explanation
Indices: 1418179--1418591 Score: 610
Period size: 215 Copynumber: 1.9 Consensus size: 215
1418169 ACTTAGATAT
* * * * *
1418179 TTCTCTTGCTTTTGTCTCCATCTCCATCTTCTTAGCACAAGGCAAAGCTCTTGTTGCAACTCAAT
1 TTCTCTTGCTTTTGTCGCCATCTCCATCTTCGTAGCACAAGGCAAAACCCTTGTGGCAACTCAAT
* **
1418244 TTTGCTTATCTTATTTTGTACGGTGCACCCATATCTTTTCCATGTAATAAGCACCGATCTGTTGT
66 TTTGCTTATCTTATTTTGTACGGTGCACCCAGATCTTTTCCATGTAATAAGCACCGATCCATTGT
* * *
1418309 CATCAAATTGAAATAAGGAGTAGCACTTTGTCAGAATCATAAATCACTATTTCTTCTTTCGGTTT
131 CATCAAATTGAAATAAGGAGTAGCACGTTGTCAGAATAATAAACCACTATTTCTTCTTTCGGTTT
1418374 GTTTCAACATAATTAGATCC
196 GTTTCAACATAATTAGATCC
* * * * *
1418394 TTCTCTTGCTTTTGTCGCCGTCTCCATCTTCGTAGCACAGGGGAAAACCCTTGTGGGAACTCGAT
1 TTCTCTTGCTTTTGTCGCCATCTCCATCTTCGTAGCACAAGGCAAAACCCTTGTGGCAACTCAAT
* * * *
1418459 TTTGTTTATCTTATTTTGTACGGTGTACCCAGCTCTTTTCCGTGTAATAAGCACCGATCCATTGT
66 TTTGCTTATCTTATTTTGTACGGTGCACCCAGATCTTTTCCATGTAATAAGCACCGATCCATTGT
* * * *
1418524 CATCGAATTGAAATAAGGAGTAGCACGTTGTCAGAATAATAAGCCACTGTTTTTTCTTTCGGTTT
131 CATCAAATTGAAATAAGGAGTAGCACGTTGTCAGAATAATAAACCACTATTTCTTCTTTCGGTTT
1418589 GTT
196 GTT
1418592 CCATATTTTT
Statistics
Matches: 174, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
215 174 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (215 bp):
TTCTCTTGCTTTTGTCGCCATCTCCATCTTCGTAGCACAAGGCAAAACCCTTGTGGCAACTCAAT
TTTGCTTATCTTATTTTGTACGGTGCACCCAGATCTTTTCCATGTAATAAGCACCGATCCATTGT
CATCAAATTGAAATAAGGAGTAGCACGTTGTCAGAATAATAAACCACTATTTCTTCTTTCGGTTT
GTTTCAACATAATTAGATCC
Found at i:1418765 original size:4 final size:4
Alignment explanation
Indices: 1418743--1418796 Score: 72
Period size: 4 Copynumber: 13.5 Consensus size: 4
1418733 GAAAAGGGTA
* * * *
1418743 ATAC ATGC ATGC ATGC ATAC ATAC ATAC ATAC ATAC ACAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1418791 ATAC AT
1 ATAC AT
1418797 TTTTTCCAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.44, C:0.26, G:0.06, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:1419949 original size:174 final size:165
Alignment explanation
Indices: 1419665--1420006 Score: 468
Period size: 174 Copynumber: 2.0 Consensus size: 165
1419655 AAATTCAGAC
* *
1419665 CTCTCTTTCCATGAAGCACTAACAATCATACAAAATTTGCACTAAATCTTCTACTTTTTCCTACT
1 CTCTCTTTCCATGAAGCACCAACAATCATACAAAATTTGCACTAAATCTTCTACTTTCTCCTACT
*
1419730 TTGCACCTAAGATTCTTCATTATTCTTAAAATATCCGTACTTGATACCTCTGTCTCACATTTACG
66 TTGCACCTAAGATTCTTCATTATTCTTAAAATATCCGTACTTGATACCTCTGTCTCACATTCACG
*
1419795 TCCGAGTCTGAATAAAGTATTTCTTGTGATTTATA
131 TCCGAGTCTGAATAAAGTATTTCTTGTGATTTACA
* * *
1419830 CTCTCTTTCCATGAAGCACCAACAATCATACAAATTTTTGCACTAAATCTTCTAGTTTCTCCTCC
1 CTCTCTTTCCATGAAGCACCAACAATCATACAAA-ATTTGCACTAAATCTTCTACTTTCTCCTAC
* * * * *
1419895 TTTGCACCTATGATGCTCGGTTTCTTCATTATTCTTGAAATATCCGTACTTGATACTTGTGTCTG
65 TTTGCACCTA--A------GATTCTTCATTATTCTTAAAATATCCGTACTTGATACCTCTGTCTC
* * *
1419960 GCATTCACGTCTGAGTCTGAATAATGTATTTCTTGTGATTTACA
122 ACATTCACGTCCGAGTCTGAATAAAGTATTTCTTGTGATTTACA
1420004 CTC
1 CTC
1420007 CAAATTAAAG
Statistics
Matches: 153, Mismatches: 15, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
165 33 0.22
166 36 0.24
168 1 0.01
174 83 0.54
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (165 bp):
CTCTCTTTCCATGAAGCACCAACAATCATACAAAATTTGCACTAAATCTTCTACTTTCTCCTACT
TTGCACCTAAGATTCTTCATTATTCTTAAAATATCCGTACTTGATACCTCTGTCTCACATTCACG
TCCGAGTCTGAATAAAGTATTTCTTGTGATTTACA
Found at i:1422245 original size:59 final size:59
Alignment explanation
Indices: 1422172--1422305 Score: 196
Period size: 59 Copynumber: 2.3 Consensus size: 59
1422162 CATTAAGAAC
* * * * * *
1422172 TCGAATCGAGCTCGAGCTCAAGTCGAATCCATTCGATCCGAGTATTTATCGAGCCTTGA
1 TCGAGTCGATCTCGAGCTCAAGTCGAATCCATTCGATCCAAATATTTATCGAACCTTAA
*
1422231 TCGAGTCGATCTCGAGCTCAAGTTGAATCCATTCGATCCAAATATTTATCGAACCTTAA
1 TCGAGTCGATCTCGAGCTCAAGTCGAATCCATTCGATCCAAATATTTATCGAACCTTAA
*
1422290 TCAAGTCGATCTCGAG
1 TCGAGTCGATCTCGAG
1422306 TCACTCTCGA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 67 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (59 bp):
TCGAGTCGATCTCGAGCTCAAGTCGAATCCATTCGATCCAAATATTTATCGAACCTTAA
Found at i:1422943 original size:15 final size:15
Alignment explanation
Indices: 1422919--1422949 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1422909 AATGTCTTTT
1422919 AAAATAATTTTTTAA
1 AAAATAATTTTTTAA
*
1422934 AAAATCATTTTTTAA
1 AAAATAATTTTTTAA
1422949 A
1 A
1422950 GACAAAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAATAATTTTTTAA
Found at i:1424926 original size:3 final size:3
Alignment explanation
Indices: 1424911--1424950 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
1424901 TAAACACACT
* *
1424911 TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1424951 TTTTTTAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 1 0.03
3 31 0.97
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1425316 original size:91 final size:91
Alignment explanation
Indices: 1425208--1425379 Score: 290
Period size: 91 Copynumber: 1.9 Consensus size: 91
1425198 GATAGGTCGA
*
1425208 ACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTATGAGCTCTC
1 ACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTATGAACTCTC
*
1425273 CATTGAAAATGTTGATGCGAAGTTGG
66 CACTGAAAATGTTGATGCGAAGTTGG
* * *
1425299 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTT
1 ACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTATGAACTCTC
*
1425364 CACTGGAAATGTTGAT
66 CACTGAAAATGTTGAT
1425380 CCCTCAAGCG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 75 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (91 bp):
ACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTATGAACTCTC
CACTGAAAATGTTGATGCGAAGTTGG
Found at i:1425542 original size:136 final size:136
Alignment explanation
Indices: 1425299--1425645 Score: 588
Period size: 136 Copynumber: 2.6 Consensus size: 136
1425289 GCGAAGTTGG
* * *
1425299 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTC-GTTGGATGAGTTCTTCTCATTATGAACTCT
1 ACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCT
* * ** * *
1425363 TCACTGGAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTTGTGAATCGAGTGATA
66 CCATTGGAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCGAAATGTCGTGAATCGAGTGATA
1425428 GGTCGA
131 GGTCGA
*
1425434 ACAAGCTCTTCTCATTATGAACTTCCTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCT
1 ACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCT
1425499 CCATTGGAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCGAAATGTCGTGAATCGAGTGATA
66 CCATTGGAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCGAAATGTCGTGAATCGAGTGATA
1425564 GGTCGA
131 GGTCGA
1425570 ACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCT
1 ACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCT
*
1425635 CAATTGGAAAT
66 CCATTGGAAAT
1425646 GCTGGTTCAC
Statistics
Matches: 199, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
135 31 0.16
136 168 0.84
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (136 bp):
ACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCT
CCATTGGAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCGAAATGTCGTGAATCGAGTGATA
GGTCGA
Found at i:1426537 original size:8 final size:8
Alignment explanation
Indices: 1426524--1426604 Score: 65
Period size: 8 Copynumber: 11.2 Consensus size: 8
1426514 TTTTTCTCTC
1426524 TTCATTTT
1 TTCATTTT
1426532 TTCATTTCT
1 TTCATTT-T
1426541 TT--TTTT
1 TTCATTTT
1426547 TTC-TTTT
1 TTCATTTT
*
1426554 TT--TCTT
1 TTCATTTT
1426560 TTCATTTT
1 TTCATTTT
1426568 TTC---TT
1 TTCATTTT
1426573 TTCATTTT
1 TTCATTTT
1426581 TTCA-TTT
1 TTCATTTT
*
1426588 TTCATTTG
1 TTCATTTT
1426596 TTC-TTTT
1 TTCATTTT
1426603 TT
1 TT
1426605 TTTCTTCAAG
Statistics
Matches: 61, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
5 5 0.08
6 8 0.13
7 21 0.34
8 24 0.39
9 3 0.05
ACGTcount: A:0.07, C:0.14, G:0.01, T:0.78
Consensus pattern (8 bp):
TTCATTTT
Found at i:1426564 original size:36 final size:36
Alignment explanation
Indices: 1426514--1426582 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
1426504 CAAACCCTCA
*
1426514 TTTTTCTCTCTTCATTTTTTCATTTCTTTTTTTTTC
1 TTTTTCTCTCTTCATTTTTTCATTTCATTTTTTTTC
* * *
1426550 TTTTTTTCTTTTCATTTTTTCTTTTCATTTTTT
1 TTTTTCTCTCTTCATTTTTTCATTTCATTTTTT
1426583 CATTTTTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (36 bp):
TTTTTCTCTCTTCATTTTTTCATTTCATTTTTTTTC
Found at i:1426567 original size:21 final size:21
Alignment explanation
Indices: 1426543--1426602 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
1426533 TCATTTCTTT
*
1426543 TTTTTTCTTTTTTTCTTTTCA
1 TTTTTTCTTTTATTCTTTTCA
1426564 TTTTTTCTTTTCATT-TTTTCA
1 TTTTTTCTTTT-ATTCTTTTCA
* *
1426585 -TTTTTCATTTGTTCTTTT
1 TTTTTTCTTTTATTCTTTT
1426603 TTTTTCTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 2 0.06
20 13 0.38
21 17 0.50
22 2 0.06
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTTTCTTTTATTCTTTTCA
Found at i:1426600 original size:49 final size:50
Alignment explanation
Indices: 1426511--1426605 Score: 140
Period size: 49 Copynumber: 1.9 Consensus size: 50
1426501 TCTCAAACCC
* *
1426511 TCATTTTTCTCTCTTCATTTTTTCATTTCTTTTTTTTTCTTTTTTTCTTT
1 TCATTTTTCTCTCTTCATTTTTTCATTTCTTATTTGTTCTTTTTTTCTTT
*
1426561 TCATTTTT-TCTTTTCATTTTTTCATTT-TTCATTTGTTCTTTTTTT
1 TCATTTTTCTCTCTTCATTTTTTCATTTCTT-ATTTGTTCTTTTTTT
1426606 TTCTTCAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
48 2 0.05
49 31 0.76
50 8 0.20
ACGTcount: A:0.07, C:0.16, G:0.01, T:0.76
Consensus pattern (50 bp):
TCATTTTTCTCTCTTCATTTTTTCATTTCTTATTTGTTCTTTTTTTCTTT
Found at i:1426602 original size:13 final size:13
Alignment explanation
Indices: 1426511--1426602 Score: 100
Period size: 13 Copynumber: 7.1 Consensus size: 13
1426501 TCTCAAACCC
*
1426511 TCATTTTTCTCTCT
1 TCATTTTT-TCTTT
*
1426525 TCATTTTTTCATT
1 TCATTTTTTCTTT
1426538 TC--TTTTT-TTT
1 TCATTTTTTCTTT
*
1426548 TCTTTTTTTCTTT
1 TCATTTTTTCTTT
1426561 TCATTTTTTCTTT
1 TCATTTTTTCTTT
1426574 TCATTTTTTCATTTT
1 TCATTTTTTC--TTT
*
1426589 TCATTTGTTCTTT
1 TCATTTTTTCTTT
1426602 T
1 T
1426603 TTTTTCTTCA
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
10 4 0.06
11 5 0.07
12 5 0.07
13 34 0.50
14 8 0.12
15 12 0.18
ACGTcount: A:0.08, C:0.16, G:0.01, T:0.75
Consensus pattern (13 bp):
TCATTTTTTCTTT
Found at i:1426612 original size:28 final size:27
Alignment explanation
Indices: 1426524--1426612 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 27
1426514 TTTTTCTCTC
1426524 TTCATTTTTTCATTTCTT-TTTTTTTCTT
1 TTCA-TTTTTCATTTCTTCTTTTTTT-TT
** * *
1426552 TTTTTCTTTTCATTTTTTCTTTTCATTTT
1 TTCAT-TTTTCATTTCTTCTTTT-TTTTT
*
1426581 TTCATTTTTCATTTGTTCTTTTTTTTT
1 TTCATTTTTCATTTCTTCTTTTTTTTT
1426608 CTTCA
1 -TTCA
1426613 AGCATAGTGC
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
27 5 0.10
28 33 0.67
29 9 0.18
30 2 0.04
ACGTcount: A:0.08, C:0.15, G:0.01, T:0.76
Consensus pattern (27 bp):
TTCATTTTTCATTTCTTCTTTTTTTTT
Found at i:1428169 original size:17 final size:17
Alignment explanation
Indices: 1428130--1428163 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1428120 CACCACTAGT
1428130 GAGGAGTCTCCATATAC
1 GAGGAGTCTCCATATAC
1428147 GAGGAGTCTCCATATAC
1 GAGGAGTCTCCATATAC
1428164 TTGGAGCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (17 bp):
GAGGAGTCTCCATATAC
Found at i:1438137 original size:2 final size:2
Alignment explanation
Indices: 1438130--1438165 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1438120 TATTTTAATA
1438130 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
1438166 CATACACGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1439723 original size:3 final size:3
Alignment explanation
Indices: 1439681--1439712 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1439671 TAAACACACT
*
1439681 TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1439713 TTTTAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1444400 original size:23 final size:23
Alignment explanation
Indices: 1444370--1444425 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
1444360 CTGAGTGGAT
1444370 GCTGGAGAGAGCAGCTCGAAGTA
1 GCTGGAGAGAGCAGCTCGAAGTA
1444393 GCTGGAGAGAGCAGCTCGAAGTA
1 GCTGGAGAGAGCAGCTCGAAGTA
*
1444416 GCCGGAGAGA
1 GCTGGAGAGA
1444426 ATGCATTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.30, C:0.18, G:0.41, T:0.11
Consensus pattern (23 bp):
GCTGGAGAGAGCAGCTCGAAGTA
Found at i:1451780 original size:20 final size:20
Alignment explanation
Indices: 1451729--1451780 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
1451719 TCTCTAAATT
*
1451729 GCAACGCGATCTCCAGTATC
1 GCAACGCGATTTCCAGTATC
** *
1451749 GCAAATCAATTTCCAG-ATTC
1 GCAACGCGATTTCCAGTA-TC
1451769 GCAACGCGATTT
1 GCAACGCGATTT
1451781 TGACTATCGC
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (20 bp):
GCAACGCGATTTCCAGTATC
Found at i:1451937 original size:20 final size:20
Alignment explanation
Indices: 1451897--1452000 Score: 174
Period size: 20 Copynumber: 5.2 Consensus size: 20
1451887 GTTTCAAGAT
*
1451897 TCGCAACGCGATT-TTACTA
1 TCGCAACGCGATTCTGACTA
1451916 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
*
1451936 TCACAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
*
1451956 TCGCAATGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
1451976 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
1451996 TCGCA
1 TCGCA
1452001 TTTAATACAA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
19 13 0.16
20 66 0.84
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:1452454 original size:19 final size:20
Alignment explanation
Indices: 1452429--1452519 Score: 87
Period size: 19 Copynumber: 4.4 Consensus size: 20
1452419 CTTATTTTAG
1452429 ATTTTTCACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
* *
1452449 -TTTTTCACTGTTGCAACAAC
1 ATTTTTCACTATCGCAAC-AC
*
1452469 ACGTTTTTCAAACTCTCGCAACAC
1 A--TTTTTC--ACTATCGCAACAC
*
1452493 A-TTTTAACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
1452512 ATTTTTCA
1 ATTTTTCA
1452520 AAATCGCGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
19 28 0.49
20 7 0.12
21 4 0.07
23 6 0.11
24 3 0.05
25 9 0.16
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (20 bp):
ATTTTTCACTATCGCAACAC
Found at i:1460809 original size:21 final size:21
Alignment explanation
Indices: 1460778--1460873 Score: 95
Period size: 21 Copynumber: 4.6 Consensus size: 21
1460768 AGCTTCGATC
1460778 ATATGGGGATCTCTCATGAGT
1 ATATGGGGATCTCTCATGAGT
** * *
1460799 ATACAGGGATCTATCATGAGC
1 ATATGGGGATCTCTCATGAGT
* * *
1460820 ATATGGGGATTTGTCAAGAGT
1 ATATGGGGATCTCTCATGAGT
* *
1460841 ATATGGGGATCTCTCA-CAGGC
1 ATATGGGGATCTCTCATGA-GT
1460862 ATATGGGGATCT
1 ATATGGGGATCT
1460874 GTCCCATGGG
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 1 0.02
21 59 0.98
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (21 bp):
ATATGGGGATCTCTCATGAGT
Found at i:1460841 original size:42 final size:42
Alignment explanation
Indices: 1460777--1460876 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
1460767 CAGCTTCGAT
* * *
1460777 CATATGGGGATCTCTCATGAGTATACAGGGATCTATCA-TGAG
1 CATATGGGGATCTGTCAAGAGTATACAGGGATCTATCACAG-G
* ** *
1460819 CATATGGGGATTTGTCAAGAGTATATGGGGATCTCTCACAGG
1 CATATGGGGATCTGTCAAGAGTATACAGGGATCTATCACAGG
1460861 CATATGGGGATCTGTC
1 CATATGGGGATCTGTC
1460877 CCATGGGGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 48 0.98
43 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (42 bp):
CATATGGGGATCTGTCAAGAGTATACAGGGATCTATCACAGG
Found at i:1462117 original size:27 final size:27
Alignment explanation
Indices: 1462079--1462141 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
1462069 TTTCGCGGCA
* * *
1462079 GCTGCTGCTGTGGTTCCTGTTGCTTCT
1 GCTGCTGTTGTGGTTCCTGCTGCTGCT
1462106 GCTGCTGTTGTGGTTCCTGCTGCTGCT
1 GCTGCTGTTGTGGTTCCTGCTGCTGCT
1462133 -CTGC-GTTGT
1 GCTGCTGTTGT
1462142 CTTTGATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 5 0.15
26 4 0.12
27 24 0.73
ACGTcount: A:0.00, C:0.25, G:0.32, T:0.43
Consensus pattern (27 bp):
GCTGCTGTTGTGGTTCCTGCTGCTGCT
Found at i:1464698 original size:18 final size:17
Alignment explanation
Indices: 1464675--1464721 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
1464665 TTTAGACAGG
*
1464675 TAATTTTAAATTTTTTGA
1 TAATTTTAAA-ATTTTGA
1464693 TAATTTTGAAAATTTTGA
1 TAATTTT-AAAATTTTGA
*
1464711 GAATTTTAAAA
1 TAATTTTAAAA
1464722 CGTATTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 4 0.15
18 19 0.73
19 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (17 bp):
TAATTTTAAAATTTTGA
Found at i:1480560 original size:216 final size:216
Alignment explanation
Indices: 1480161--1480674 Score: 488
Period size: 216 Copynumber: 2.4 Consensus size: 216
1480151 AACAAGTGAT
* * *
1480161 AAGAAGATGATGCCACCAGAATAGGATGTCTTTTTAGAAACAATAAGTTTCTCGATAAGGTCAGG
1 AAGAAGATGATGCCACCAGAAAAGGATGTCTTTTTAGAAACAATAAGTTTCTCGAGAAGGCCAGG
* * *
1480226 TTACTCATGTTGAAGAAGTTTATAAGACCCACGAGTTTGATGGATAGTGAATTAGGAATAAAAAC
66 TTACTCATGTTGAAGAAGTTGATAAGACCCACGAGTTTGATGAAAAGTGAATTAGGAATAAAAAC
* * * *** * * * *
1480291 ATAATTTAGAAACCATGCTCATGATTGCAACAGTAGCCTCGTCCCTTCAATGACTTGTTT-TTCA
131 AGAATTTAGAAACCATGCTCATGACTGCAACAGCAGAAACGACCCTCCAATGACATATTTGTTCA
*
1480355 TATCT-ACGACCAATTTGATGG
196 GAT-TAACGACCAATTTGATGG
* *
1480376 AAGAAGATGATGCCACCAGAAAAGGATGATTTTTTTATAAA-ATATAAGTTTCTCGAGAAGGCCA
1 AAGAAGATGATGCCACCAGAAAAGGATG-TCTTTTTAGAAACA-ATAAGTTTCTCGAGAAGGCCA
* * * * * * *
1480440 TGTTACTCGTGTTGAAGAGGTTGA-AGAGATCGACGGGTTTGATGAAAAGTGAATCT-GGCATAA
64 GGTTACTCATGTTGAAGAAGTTGATA-AGACCCACGAGTTTGATGAAAAGTGAAT-TAGGAATAA
* *
1480503 AAACAGAATTT-GAAAATCATGTCTC-TGACTGCAGCAGCAGTAAAC-ACCCTCCAATGACATAT
127 AAACAGAATTTAG-AAACCATG-CTCATGACTGCAACAGCAG-AAACGACCCTCCAATGACATAT
** *
1480565 TTGTTTGGATTAACGACCTATTTGATGG
189 TTGTTCAGATTAACGACCAATTTGATGG
** * ** ** * * ** *
1480593 AAGAAGATGACACCACCA-AAAGATGATACCTTTTTAGAAATGACAAGTTTTTCGAGAAGGATAT
1 AAGAAGATGATGCCACCAGAAA-AGGATGTCTTTTTAGAAACAATAAGTTTCTCGAGAAGGCCAG
*
1480657 GTTACTCATATTGAAGAA
65 GTTACTCATGTTGAAGAA
1480675 AGTTTATATG
Statistics
Matches: 242, Mismatches: 46, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
215 30 0.12
216 168 0.69
217 44 0.18
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (216 bp):
AAGAAGATGATGCCACCAGAAAAGGATGTCTTTTTAGAAACAATAAGTTTCTCGAGAAGGCCAGG
TTACTCATGTTGAAGAAGTTGATAAGACCCACGAGTTTGATGAAAAGTGAATTAGGAATAAAAAC
AGAATTTAGAAACCATGCTCATGACTGCAACAGCAGAAACGACCCTCCAATGACATATTTGTTCA
GATTAACGACCAATTTGATGG
Found at i:1482018 original size:12 final size:12
Alignment explanation
Indices: 1481998--1482046 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
1481988 TACTTTATCC
*
1481998 TTTTATTCTTCT
1 TTTTCTTCTTCT
1482010 TTTTCTTCTTCT
1 TTTTCTTCTTCT
* *
1482022 TCTTCTTCTTCA
1 TTTTCTTCTTCT
* *
1482034 TTTCCATCTTCT
1 TTTTCTTCTTCT
1482046 T
1 T
1482047 ATTAACTTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTCTTCTTCT
Found at i:1482046 original size:3 final size:3
Alignment explanation
Indices: 1482003--1482032 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
1481993 TATCCTTTTA
*
1482003 TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1482033 ATTTCCATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:1486375 original size:13 final size:13
Alignment explanation
Indices: 1486359--1486383 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1486349 AAATCATAAA
1486359 TTAAAAAATTATC
1 TTAAAAAATTATC
1486372 TTAAAAAATTAT
1 TTAAAAAATTAT
1486384 AATAAAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAAAAAATTATC
Found at i:1486397 original size:37 final size:37
Alignment explanation
Indices: 1486339--1486447 Score: 89
Period size: 37 Copynumber: 2.9 Consensus size: 37
1486329 AAATCGTTGC
*
1486339 AAAATAAA-AAAAATCATAAATTAAAAAATTATCTTAA-
1 AAAATAAATAAACAT-A-AAATTAAAAAATTATCTTAAT
** * **
1486376 AAAATTATAATAAA-ATAAAATTTTAAGATTATAAATAAT
1 AAAA-TA-AATAAACATAAAATTAAAAAATTAT-CTTAAT
*
1486415 AAAATAAATAAACATAAATTTAAAAAATTATCT
1 AAAATAAATAAACATAAAATTAAAAAATTATCT
1486448 CCTTAATTAT
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
37 22 0.40
38 22 0.40
39 8 0.15
40 3 0.05
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (37 bp):
AAAATAAATAAACATAAAATTAAAAAATTATCTTAAT
Found at i:1488153 original size:14 final size:14
Alignment explanation
Indices: 1488134--1488173 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
1488124 AAACAAGTAG
*
1488134 ATCAAATTCTTTCA
1 ATCAAATTCTTCCA
1488148 ATCAAATTCTTCCA
1 ATCAAATTCTTCCA
1488162 ATCAAATTCTTC
1 ATCAAATTCTTC
1488174 GTTGTTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (14 bp):
ATCAAATTCTTCCA
Found at i:1490373 original size:23 final size:24
Alignment explanation
Indices: 1490347--1490401 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
1490337 TTTATATTCG
1490347 ATTCGTTTAACT-TTTACGAATAT
1 ATTCGTTTAACTGTTTACGAATAT
* ** *
1490370 ATTCATTTATGTGTTTACTAATAT
1 ATTCGTTTAACTGTTTACGAATAT
1490394 A-TCGTTTA
1 ATTCGTTTA
1490402 TTGTTTGCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (24 bp):
ATTCGTTTAACTGTTTACGAATAT
Found at i:1490406 original size:22 final size:24
Alignment explanation
Indices: 1490359--1490407 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1490349 TCGTTTAACT
1490359 TTTACGAATATATTCATTTATGTG
1 TTTACGAATATATTCATTTATGTG
* *
1490383 TTTACTAATATA-TCGTTTAT-TG
1 TTTACGAATATATTCATTTATGTG
1490405 TTT
1 TTT
1490408 GCAAATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 7 0.30
24 11 0.48
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (24 bp):
TTTACGAATATATTCATTTATGTG
Found at i:1490564 original size:69 final size:69
Alignment explanation
Indices: 1490472--1490609 Score: 197
Period size: 69 Copynumber: 2.0 Consensus size: 69
1490462 TTTTGAACTT
* * *
1490472 TAAAATTTATCATGTGTTCAATATGGTCCTACCTTCT-TCAATATTTTAAATGTAAAATAATAAA
1 TAAAATTTATCATATGTTCAATATAGTCCTACATT-TGTCAATATTTTAAATGTAAAATAATAAA
1490536 AGAAA
65 AGAAA
* * * *
1490541 TAAAATTTATCATATTTTTAATATAGTCTTACATTTGTCAATATTTTAAATGTATAATAATAAAA
1 TAAAATTTATCATATGTTCAATATAGTCCTACATTTGTCAATATTTTAAATGTAAAATAATAAAA
1490606 GAAA
66 GAAA
1490610 AATAATAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 60 0.98
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (69 bp):
TAAAATTTATCATATGTTCAATATAGTCCTACATTTGTCAATATTTTAAATGTAAAATAATAAAA
GAAA
Found at i:1494821 original size:3 final size:3
Alignment explanation
Indices: 1494813--1494850 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1494803 TGAAGACTAC
1494813 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1494851 GCAAAGTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1501728 original size:19 final size:20
Alignment explanation
Indices: 1501706--1501746 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
1501696 ATCTATTTTC
1501706 TTATATTATATC-TTTATTT
1 TTATATTATATCGTTTATTT
* *
1501725 TTATTTTATTTCGTTTATTT
1 TTATATTATATCGTTTATTT
1501745 TT
1 TT
1501747 TAATAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (20 bp):
TTATATTATATCGTTTATTT
Found at i:1502924 original size:31 final size:31
Alignment explanation
Indices: 1502889--1502950 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
1502879 ATATGGTCAT
* * *
1502889 TTTCGTTTATATTTAATGAAGATGTTATCAC
1 TTTCGTTTATATTAAATGAAGACGTGATCAC
* *
1502920 TTTCGTTTTTATTAAATTAAGACGTGATCAC
1 TTTCGTTTATATTAAATGAAGACGTGATCAC
1502951 CATGAGTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (31 bp):
TTTCGTTTATATTAAATGAAGACGTGATCAC
Done.