Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 34 of 170
Found at i:9335944 original size:6 final size:6
Alignment explanation
Indices: 9335933--9335964 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
9335923 TGCTAACAAA
9335933 AACCCT AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AACCCT AA
9335965 TATGATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.16
Consensus pattern (6 bp):
AACCCT
Found at i:9335946 original size:18 final size:18
Alignment explanation
Indices: 9335925--9335964 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9335915 AACCTTAATG
9335925 CTAACAAAAACCCTAACC
1 CTAACAAAAACCCTAACC
***
9335943 CTAACCCTAACCCTAACC
1 CTAACAAAAACCCTAACC
9335961 CTAA
1 CTAA
9335965 TATGATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.15
Consensus pattern (18 bp):
CTAACAAAAACCCTAACC
Found at i:9336018 original size:35 final size:36
Alignment explanation
Indices: 9335979--9336141 Score: 98
Period size: 35 Copynumber: 4.4 Consensus size: 36
9335969 ATATAATTTG
9335979 ATAATTTTACTAACAATTAATACAATTA-ACAATTA
1 ATAATTTTACTAACAATTAATACAATTACACAATTA
* * * ** * * * *
9336014 ATAATTTGACTAAAAAAATGTTAGATTTTACAAAATGTT
1 ATAATTTTACT-AACAATTAATACA-ATTACACAAT-TA
* * ** * * * *
9336053 TTGACTGGTACTAACAATTAATA-ATTTGATATAATTTG
1 AT-AATTTTACTAACAATTAATACAATT-ACACAA-TTA
9336091 ATAATTTTACTAACAATTAATACAATTA-ACAATTA
1 ATAATTTTACTAACAATTAATACAATTACACAATTA
9336126 ATAATTTTACTAACAA
1 ATAATTTTACTAACAA
9336142 AATGTTTTGA
Statistics
Matches: 92, Mismatches: 28, Indels: 16
0.68 0.21 0.12
Matches are distributed among these distances:
35 28 0.30
36 11 0.12
37 24 0.26
38 14 0.15
39 10 0.11
40 5 0.05
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.39
Consensus pattern (36 bp):
ATAATTTTACTAACAATTAATACAATTACACAATTA
Found at i:9336203 original size:22 final size:23
Alignment explanation
Indices: 9336178--9336227 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
9336168 TAATTTGATA
* *
9336178 TAATTTTAATAACAA-ATAGTTT
1 TAATTTTAATAAAAATATAATTT
9336200 TAATTTTAATAAAAATATAATTT
1 TAATTTTAATAAAAATATAATTT
9336223 TAATT
1 TAATT
9336228 ATATTTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TAATTTTAATAAAAATATAATTT
Found at i:9337287 original size:18 final size:17
Alignment explanation
Indices: 9337264--9337297 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9337254 TTCACTTTCC
9337264 AATTTATTACTTTAATTT
1 AATTTA-TACTTTAATTT
*
9337282 AATTTATCCTTTAATT
1 AATTTATACTTTAATT
9337298 AAAATCGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTATACTTTAATTT
Found at i:9338210 original size:19 final size:19
Alignment explanation
Indices: 9338188--9338230 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
9338178 AATCATCAGG
9338188 CAATGATT-AGGTCAAAAAT
1 CAATGATTGA-GTCAAAAAT
9338207 CAATGATTGAGTCAAAAAT
1 CAATGATTGAGTCAAAAAT
9338226 CAATG
1 CAATG
9338231 TGGTGCTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.26
Consensus pattern (19 bp):
CAATGATTGAGTCAAAAAT
Found at i:9339353 original size:18 final size:20
Alignment explanation
Indices: 9339318--9339355 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9339308 GAAAAATATT
*
9339318 AAATATATATATTATTTTTA
1 AAATATATATAGTATTTTTA
9339338 AAATATA-ATAGT-TTTTTA
1 AAATATATATAGTATTTTTA
9339356 TTTTAAGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
AAATATATATAGTATTTTTA
Found at i:9339568 original size:16 final size:16
Alignment explanation
Indices: 9339547--9339588 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
9339537 AATAATTTGA
*
9339547 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
9339563 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
9339579 TAGTTTTAAT
1 TAATTTTAAT
9339589 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:9339572 original size:22 final size:23
Alignment explanation
Indices: 9339562--9339617 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
9339552 TTACTAACAA
* * *
9339562 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
9339584 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
9339607 TTAATTTTAAT
1 TTAATTTTAAT
9339618 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:9340899 original size:23 final size:22
Alignment explanation
Indices: 9340857--9340899 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9340847 TGGTAAAAAC
* *
9340857 ATTAAGTTAAATATTGAATGAA
1 ATTAAGCTAAATAATGAATGAA
9340879 ATTAAGCTAATATAATGAATG
1 ATTAAGCTAA-ATAATGAATG
9340900 GTTATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.49, C:0.02, G:0.14, T:0.35
Consensus pattern (22 bp):
ATTAAGCTAAATAATGAATGAA
Found at i:9342723 original size:20 final size:20
Alignment explanation
Indices: 9342698--9342735 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9342688 GATACCCAAT
9342698 TATTTCATGGCTACGGTACG
1 TATTTCATGGCTACGGTACG
*
9342718 TATTTCATGGTTACGGTA
1 TATTTCATGGCTACGGTA
9342736 TGTGAAGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (20 bp):
TATTTCATGGCTACGGTACG
Found at i:9344900 original size:14 final size:14
Alignment explanation
Indices: 9344881--9344914 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9344871 TATAGTTTAG
*
9344881 GGTTTAATATATAT
1 GGTTTAAGATATAT
*
9344895 GGTTTAGGATATAT
1 GGTTTAAGATATAT
9344909 GGTTTA
1 GGTTTA
9344915 GTGTATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (14 bp):
GGTTTAAGATATAT
Found at i:9344922 original size:14 final size:14
Alignment explanation
Indices: 9344889--9344915 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9344879 AGGGTTTAAT
9344889 ATATATGGTTTAGG
1 ATATATGGTTTAGG
9344903 ATATATGGTTTAG
1 ATATATGGTTTAG
9344916 TGTATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (14 bp):
ATATATGGTTTAGG
Found at i:9345011 original size:14 final size:15
Alignment explanation
Indices: 9344978--9345011 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
9344968 TAAGGTTTAT
9344978 AGATTATGGAATTAG
1 AGATTATGGAATTAG
9344993 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
*
9345007 GGATT
1 AGATT
9345012 TTGGTTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:9348961 original size:13 final size:13
Alignment explanation
Indices: 9348943--9348985 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
9348933 TTTTATTTTG
*
9348943 ATTTAAAATTAGA
1 ATTTAAAATTAAA
*
9348956 ATTTAAAAATAAA
1 ATTTAAAATTAAA
* *
9348969 ATTCAAAATTACA
1 ATTTAAAATTAAA
9348982 ATTT
1 ATTT
9348986 TGCATTGAGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (13 bp):
ATTTAAAATTAAA
Found at i:9350179 original size:43 final size:43
Alignment explanation
Indices: 9350109--9350245 Score: 166
Period size: 43 Copynumber: 3.2 Consensus size: 43
9350099 TTTTTGGCAG
* * * *
9350109 AAGCGCCGCAAAAGGTCATGATATTTAGCGGTGTTTATAGGAA
1 AAGCGCCGCTAAAGGTCATGACATTTAGCGGCGTTTGTAGGAA
* * * *
9350152 AAGCGTCGCTAAAGGTCTTGACCTTTAGCGGCGTTTGTAAGAA
1 AAGCGCCGCTAAAGGTCATGACATTTAGCGGCGTTTGTAGGAA
* * * *
9350195 AAGCGCCGCTAAAGGTCCTGGCTTTTAGTGGCGTTTGTAGGAA
1 AAGCGCCGCTAAAGGTCATGACATTTAGCGGCGTTTGTAGGAA
9350238 AAGCGCCG
1 AAGCGCCG
9350246 AAAAGTTAGT
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGACATTTAGCGGCGTTTGTAGGAA
Found at i:9367771 original size:21 final size:20
Alignment explanation
Indices: 9367745--9367789 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
9367735 TAAGGAGATA
9367745 TTTAAAAATATTAATTTATTT
1 TTTAAAAATA-TAATTTATTT
* * *
9367766 TTTAAAATTATATTTTGTTT
1 TTTAAAAATATAATTTATTT
9367786 TTTA
1 TTTA
9367790 TTAAAAGGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTAAAAATATAATTTATTT
Found at i:9369193 original size:36 final size:36
Alignment explanation
Indices: 9369146--9369219 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
9369136 TTTCGTTAAC
9369146 TAAGCTATTTTCTGTGAAATAAACATATAAAACACA
1 TAAGCTATTTTCTGTGAAATAAACATATAAAACACA
9369182 TAAGCTATTTTCTGTGAAATAAACATATAAAACACA
1 TAAGCTATTTTCTGTGAAATAAACATATAAAACACA
9369218 TA
1 TA
9369220 TTTTCTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (36 bp):
TAAGCTATTTTCTGTGAAATAAACATATAAAACACA
Found at i:9372215 original size:27 final size:27
Alignment explanation
Indices: 9372160--9372217 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
9372150 CCACACGACT
* * ** *
9372160 TGGCACACGGCCTACCATACGGTCGTG
1 TGGCACACGACCTACCACACGACCCTG
9372187 TGGCACACGACCTACCACACGACCCTG
1 TGGCACACGACCTACCACACGACCCTG
9372214 TGGC
1 TGGC
9372218 GCATAAGGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.38, G:0.26, T:0.16
Consensus pattern (27 bp):
TGGCACACGACCTACCACACGACCCTG
Found at i:9374679 original size:21 final size:20
Alignment explanation
Indices: 9374648--9374703 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 20
9374638 TTCTTAATCC
9374648 AATATACATTTCAATACCACAAT
1 AATAT-CATTTCAAT-CCA-AAT
*
9374671 AAT-TCATTT-AATTCAAAT
1 AATATCATTTCAATCCAAAT
9374689 AATATCATTTGCAAT
1 AATATCATTT-CAAT
9374704 TTCCATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.21
19 8 0.28
20 3 0.10
21 8 0.28
22 1 0.03
23 3 0.10
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.38
Consensus pattern (20 bp):
AATATCATTTCAATCCAAAT
Found at i:9385707 original size:20 final size:20
Alignment explanation
Indices: 9385682--9385735 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
9385672 CGATACCAAT
**
9385682 TAAAAATATCGATAATTTTG
1 TAAAAATATCGATAATCGTG
* *
9385702 TAAAAATATTGATACTCGTG
1 TAAAAATATCGATAATCGTG
*
9385722 TAAATATATCGATA
1 TAAAAATATCGATA
9385736 CCATTGGGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (20 bp):
TAAAAATATCGATAATCGTG
Found at i:9391423 original size:15 final size:16
Alignment explanation
Indices: 9391394--9391423 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9391384 CAAACATGCT
9391394 TTAACACATTATCAAA
1 TTAACACATTATCAAA
9391410 TTAACACA-TATCAA
1 TTAACACATTATCAA
9391424 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:9395588 original size:21 final size:24
Alignment explanation
Indices: 9395562--9395608 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
9395552 GATTAGGGGT
9395562 GTTAC-ATTTA-CTGG-TATCAGA
1 GTTACAATTTAGCTGGTTATCAGA
*
9395583 GTTACAATTTAGCTGGTTATTAGA
1 GTTACAATTTAGCTGGTTATCAGA
9395607 GT
1 GT
9395609 AAACGTAGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 5 0.23
23 4 0.18
24 8 0.36
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (24 bp):
GTTACAATTTAGCTGGTTATCAGA
Found at i:9402479 original size:43 final size:41
Alignment explanation
Indices: 9402414--9402556 Score: 108
Period size: 43 Copynumber: 3.4 Consensus size: 41
9402404 ATCACATCTA
* * ** *
9402414 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATTG
1 ATGCCATGTCCCAGACATGGTCTTACATGAAATCACATA-CG
* * *
9402456 ATGCCATTGTCCCAGACAGGGTCTTATATGAAATCATATACG
1 ATGCCA-TGTCCCAGACATGGTCTTACATGAAATCACATACG
* * * *
9402498 ATGCTAATGTCGCAGACATGGTCTTACA-CATAATCTCATATCG
1 ATGC-CATGTCCCAGACATGGTCTTACATGA-AATCACATA-CG
*
9402541 ATGCTAATGTCCCAGA
1 ATGC-CATGTCCCAGA
9402557 TGTAACACCC
Statistics
Matches: 81, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 36 0.44
43 44 0.54
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (41 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAAATCACATACG
Found at i:9404161 original size:28 final size:28
Alignment explanation
Indices: 9404098--9404195 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
9404088 ATATTAAGTC
*
9404098 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
9404125 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
9404153 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
9404182 CGCACACTTAGTGC
1 CGCACACTTAGTGC
9404196 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:9412437 original size:28 final size:28
Alignment explanation
Indices: 9412374--9412471 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
9412364 ATATTAAGTC
*
9412374 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
9412401 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
9412429 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
9412458 CGCACACTTAGTGC
1 CGCACACTTAGTGC
9412472 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:9425116 original size:17 final size:17
Alignment explanation
Indices: 9425094--9425137 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 17
9425084 CTCAATAATA
9425094 AAAAGAAAGAGAAAAAG
1 AAAAGAAAGAGAAAAAG
9425111 AAAAGAAGAAGAGAAAAAG
1 AAAAG-A-AAGAGAAAAAG
9425130 AAGAAGAA
1 AA-AAGAA
9425138 TTGAAGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.21
18 2 0.08
19 14 0.58
20 3 0.12
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGAGAAAAAG
Found at i:9432423 original size:25 final size:25
Alignment explanation
Indices: 9432386--9432438 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
9432376 CTCAGGGTAC
9432386 TACTAACAAGTTTAAATTTG-AGAAG
1 TACTAACAAGTTTAAATTTGTA-AAG
*
9432411 TACTAACATGTTTAAATTTGTAAAG
1 TACTAACAAGTTTAAATTTGTAAAG
9432436 TAC
1 TAC
9432439 ACCTCCACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (25 bp):
TACTAACAAGTTTAAATTTGTAAAG
Found at i:9433066 original size:45 final size:45
Alignment explanation
Indices: 9432996--9433094 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
9432986 CGATGGATGG
* * *
9432996 TTTTATTTTGTTGGATCAGTTTGATGGATGTATTTTGATGTACGA
1 TTTTATTTTGTTGAATCAGTTTGATGGATGTATTTTGATGGACAA
*
9433041 TTTTATTTTGTTGAATCA-TTCTGATGGTTGTATTTTGATGGACAA
1 TTTTATTTTGTTGAATCAGTT-TGATGGATGTATTTTGATGGACAA
9433086 TTTATATTT
1 TTT-TATTT
9433095 ATCCTTTATA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
44 2 0.04
45 41 0.85
46 5 0.10
ACGTcount: A:0.21, C:0.05, G:0.20, T:0.54
Consensus pattern (45 bp):
TTTTATTTTGTTGAATCAGTTTGATGGATGTATTTTGATGGACAA
Found at i:9433990 original size:56 final size:56
Alignment explanation
Indices: 9433909--9434021 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 56
9433899 GATTGAGACA
*
9433909 AATTTGATAAGATTTTATTTCTTTCTTTATTTAGGATTGAGCCAATCCTTGATTAT
1 AATTTGATAAGACTTTATTTCTTTCTTTATTTAGGATTGAGCCAATCCTTGATTAT
* * ***
9433965 AATTTGATGAGACTTTATTTGTTTCTTTATTTAGGATTGATTTAATCCTTGATTAT
1 AATTTGATAAGACTTTATTTCTTTCTTTATTTAGGATTGAGCCAATCCTTGATTAT
9434021 A
1 A
9434022 GGGATTCTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (56 bp):
AATTTGATAAGACTTTATTTCTTTCTTTATTTAGGATTGAGCCAATCCTTGATTAT
Found at i:9438155 original size:16 final size:16
Alignment explanation
Indices: 9438118--9438159 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
9438108 TTAATCATAT
*
9438118 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
9438134 TT-AAATATATTATAA
1 TTAAAATATATTATAA
9438149 TTAAAATATAT
1 TTAAAATATAT
9438160 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:9438166 original size:14 final size:15
Alignment explanation
Indices: 9438127--9438168 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9438117 TTTAAACATA
*
9438127 ATTATTATTAAATAT
1 ATTATAATTAAATAT
9438142 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
9438156 A-TATAATTTAATA
1 ATTATAATTAAATA
9438169 AAATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:9438277 original size:16 final size:16
Alignment explanation
Indices: 9438233--9438279 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
9438223 TACTATAAAA
*
9438233 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
9438249 TATTATT-AAATATAT
1 TATAATTAAAATATAT
9438264 TATAATTAAAATATAT
1 TATAATTAAAATATAT
9438280 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:9438385 original size:15 final size:15
Alignment explanation
Indices: 9438353--9438408 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
9438343 TACTATAAAA
9438353 TATAATTTAACATA-AT
1 TATAA-TTAA-ATATAT
*
9438369 TATTATTAAATATAT
1 TATAATTAAATATAT
9438384 TATAATTAAATATAT
1 TATAATTAAATATAT
*
9438399 T-TAATAAAAT
1 TATAATTAAAT
9438409 TCTTAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 11 0.31
15 21 0.58
16 4 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
TATAATTAAATATAT
Found at i:9438512 original size:16 final size:16
Alignment explanation
Indices: 9438468--9438514 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
9438458 ATACTATAAA
*
9438468 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
9438484 TATTATT-AAATATAT
1 TATAATTAAAATATAT
9438499 TATAATTAAAATATAT
1 TATAATTAAAATATAT
9438515 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:9438752 original size:16 final size:16
Alignment explanation
Indices: 9438709--9438754 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
9438699 ACTATAAAAG
*
9438709 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
9438725 ATTATT-AAATATATT
1 ATAATTAAAATATATT
9438740 ATAATTAAAATATAT
1 ATAATTAAAATATAT
9438755 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:9438761 original size:14 final size:15
Alignment explanation
Indices: 9438709--9438763 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
9438699 ACTATAAAAG
9438709 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
9438725 ATTATTAAATATATT
1 ATAATTAAATATATT
9438740 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
9438753 ATAATTTAATA
1 ATAATTAAATA
9438764 AAATTATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:9438882 original size:120 final size:120
Alignment explanation
Indices: 9438116--9438867 Score: 1309
Period size: 120 Copynumber: 6.3 Consensus size: 120
9438106 ATTTAATCAT
9438116 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATA
9438181 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
9438237 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
* *
9438302 TCAATATTATTATATGAATTTACTCAAATCGTAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
*
9438357 ATTTAACATAATTATTATTAAATATATTATAATT--AA-ATAT-ATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
* *
9438418 TCAATATTATTATATGAATTTACTCAAATCGTAATATATGATACTAT-AAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
*
9438472 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
* *
9438537 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* *
9438592 ATTTAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
* *
9438657 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
9438712 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
*
9438777 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* *
9438832 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAA
9438868 TATTAAATAA
Statistics
Matches: 610, Mismatches: 15, Indels: 13
0.96 0.02 0.02
Matches are distributed among these distances:
115 41 0.07
116 67 0.11
117 6 0.01
118 6 0.01
119 65 0.11
120 419 0.69
121 6 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
Found at i:9440057 original size:25 final size:25
Alignment explanation
Indices: 9440023--9440074 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
9440013 AAGAATCAGT
9440023 AAACTTAAACAGACGGGACTGGTGA
1 AAACTTAAACAGACGGGACTGGTGA
9440048 AAACTTAAACAGACGGGACTGGTGA
1 AAACTTAAACAGACGGGACTGGTGA
9440073 AA
1 AA
9440075 TATAAATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.15
Consensus pattern (25 bp):
AAACTTAAACAGACGGGACTGGTGA
Found at i:9440424 original size:137 final size:138
Alignment explanation
Indices: 9440175--9440445 Score: 438
Period size: 137 Copynumber: 2.0 Consensus size: 138
9440165 AACTTAAAAT
* * *
9440175 TGAAATCAATTATGGAATGCGTTACATTCAAAATAACAATAAACAAAATATGGATATAACACTAG
1 TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
* * *
9440240 CTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTCACCTGAAAGTG-AGATATGAAAGAT
66 CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCA-ATATGAAAGAC
9440304 ATGCCCAAA
130 ATGCCCAAA
* *
9440313 TGAAATCATTTATGGCATGAGTTACATTCAAAATAACAAT-AACAAAAGATGGATATAACACTAA
1 TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
*
9440377 CTACAAAATTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
66 CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
9440442 TGCC
131 TGCC
9440446 ATTTTCTGAA
Statistics
Matches: 123, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
137 85 0.69
138 38 0.31
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (138 bp):
TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
TGCCCAAA
Found at i:9443866 original size:32 final size:32
Alignment explanation
Indices: 9443830--9443896 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
9443820 AATTTTAAGA
9443830 GAAAA-CGAAAGAGGAAAGAAAT-GAAAGATGTT
1 GAAAACCGAAAGA-GAAAGAAATGGAAA-ATGTT
* *
9443862 GAAAACCGAAAGAGAAATAGATGGAAAATGTT
1 GAAAACCGAAAGAGAAAGAAATGGAAAATGTT
9443894 GAA
1 GAA
9443897 GATGAAGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 20 0.65
33 11 0.35
ACGTcount: A:0.55, C:0.04, G:0.27, T:0.13
Consensus pattern (32 bp):
GAAAACCGAAAGAGAAAGAAATGGAAAATGTT
Found at i:9447995 original size:20 final size:20
Alignment explanation
Indices: 9447970--9448016 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
9447960 AGTCAGCCCC
9447970 CCATGCAGCAGCCAAGGTGG
1 CCATGCAGCAGCCAAGGTGG
*
9447990 CCATGCAGCAGTCAAGGTGG
1 CCATGCAGCAGCCAAGGTGG
9448010 CCATGCA
1 CCATGCA
9448017 AGGAACGTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.32, T:0.13
Consensus pattern (20 bp):
CCATGCAGCAGCCAAGGTGG
Found at i:9452474 original size:20 final size:20
Alignment explanation
Indices: 9452449--9452496 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
9452439 AGTCAGCCCC
*
9452449 CCATGCAGCAGCCAAGGTGG
1 CCATGCAACAGCCAAGGTGG
*
9452469 CCATGCAACAGTCAAGGTGG
1 CCATGCAACAGCCAAGGTGG
9452489 CCATGCAA
1 CCATGCAA
9452497 GGAACGTGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.12
Consensus pattern (20 bp):
CCATGCAACAGCCAAGGTGG
Found at i:9453407 original size:20 final size:21
Alignment explanation
Indices: 9453374--9453412 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9453364 AATAAATGAT
*
9453374 AAATTTTTTAAAAAATTATTA
1 AAATTATTTAAAAAATTATTA
9453395 AAATTATTT-AAAAATTAT
1 AAATTATTTAAAAAATTAT
9453413 AATAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATTATTTAAAAAATTATTA
Found at i:9454074 original size:21 final size:22
Alignment explanation
Indices: 9454033--9454089 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
9454023 TTAAAATTAA
*
9454033 AATTTTGTTTT-ATATTCTTTAT
1 AATTTT-TTTTAAAATTCTTTAT
9454055 AATTTTTTTTAAAATT-TTTAT
1 AATTTTTTTTAAAATTCTTTAT
*
9454076 AATTTTTTTGAAAA
1 AATTTTTTTTAAAA
9454090 ATATATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 22 0.69
22 10 0.31
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (22 bp):
AATTTTTTTTAAAATTCTTTAT
Found at i:9459445 original size:37 final size:37
Alignment explanation
Indices: 9459395--9459472 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
9459385 GCTTCTAAAC
9459395 ATAGATTCGACTCAGTTAATTCCCTGCATAGTTCAAG
1 ATAGATTCGACTCAGTTAATTCCCTGCATAGTTCAAG
9459432 ATAGATTCGACTCAGTTAATTCCCTGCATAGTTCAAG
1 ATAGATTCGACTCAGTTAATTCCCTGCATAGTTCAAG
9459469 ATAG
1 ATAG
9459473 GCCCGTGGCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (37 bp):
ATAGATTCGACTCAGTTAATTCCCTGCATAGTTCAAG
Found at i:9460203 original size:5 final size:5
Alignment explanation
Indices: 9460176--9460214 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
9460166 TACTTACATG
9460176 TTATA -TATA TATATA TGTATA TTATA TTATA TTATA TTA
1 TTATA TTATA T-TATA T-TATA TTATA TTATA TTATA TTA
9460215 ACAATTGTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 4 0.13
5 17 0.55
6 10 0.32
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (5 bp):
TTATA
Found at i:9468062 original size:5 final size:5
Alignment explanation
Indices: 9468041--9468079 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
9468031 CACCAACATG
* *
9468041 AAAAG AAAAC AATAAC AGAAC AAAAC AAAAC AAAAC AAA
1 AAAAC AAAAC AA-AAC AAAAC AAAAC AAAAC AAAAC AAA
9468080 GAGCAACTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.77, C:0.15, G:0.05, T:0.03
Consensus pattern (5 bp):
AAAAC
Found at i:9468335 original size:30 final size:30
Alignment explanation
Indices: 9468264--9468335 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
9468254 TGATAGGGGG
* * *
9468264 ATGGAAAATGGCAGCTCCGTTAAGTTTGTA
1 ATGGAAAATGGTAGCTCCGTTAAGTCTATA
* * *
9468294 ACGGAAAATGGTAGCTTCGTTACGTCTATA
1 ATGGAAAATGGTAGCTCCGTTAAGTCTATA
9468324 ATGGAAAATGGT
1 ATGGAAAATGGT
9468336 TAGTGGCAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
ATGGAAAATGGTAGCTCCGTTAAGTCTATA
Found at i:9468671 original size:9 final size:9
Alignment explanation
Indices: 9468657--9468690 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
9468647 ATTTTCGAAT
*
9468657 TCGAATAAC
1 TCGAATAAA
*
9468666 TCGAATAAT
1 TCGAATAAA
9468675 TCGAATAAA
1 TCGAATAAA
9468684 TCGAATA
1 TCGAATA
9468691 CCAAACTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAA
Found at i:9468675 original size:18 final size:18
Alignment explanation
Indices: 9468654--9468690 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
9468644 TTAATTTTCG
*
9468654 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
9468672 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
9468690 A
1 A
9468691 CCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:9468750 original size:23 final size:23
Alignment explanation
Indices: 9468704--9468750 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
9468694 AACTATAATA
*
9468704 TTTTACATTTTACCCCAATTTTT
1 TTTTACATTTTACCCCAATCTTT
*
9468727 TTTTAC-TTTTCCCCCAATACTTT
1 TTTTACATTTTACCCCAAT-CTTT
9468750 T
1 T
9468751 ACTCCCTCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTTACATTTTACCCCAATCTTT
Found at i:9469344 original size:19 final size:19
Alignment explanation
Indices: 9469320--9469357 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9469310 AAGTTAATAA
9469320 CAAATTTGATTACGATGGG
1 CAAATTTGATTACGATGGG
9469339 CAAATTTGATTACGATGGG
1 CAAATTTGATTACGATGGG
9469358 TGACAGTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (19 bp):
CAAATTTGATTACGATGGG
Found at i:9471775 original size:6 final size:6
Alignment explanation
Indices: 9471764--9471796 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
9471754 TCAGGGCCTG
9471764 AAACAC AAACAC AAACAC AAACAC AAACAC AAA
1 AAACAC AAACAC AAACAC AAACAC AAACAC AAA
9471797 TAAATTGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAC
Found at i:9473209 original size:56 final size:56
Alignment explanation
Indices: 9473123--9473237 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
9473113 TTAGAATTAG
9473123 TTAGTCAATTCTAATCAGATGATAACTAATGGACACGATAGTTGGAAGATGCATGC
1 TTAGTCAATTCTAATCAGATGATAACTAATGGACACGATAGTTGGAAGATGCATGC
9473179 TTAGTCAATTCTAATCAGATGATAACTAATGGACACGATAGTTGGAAGATGCATGC
1 TTAGTCAATTCTAATCAGATGATAACTAATGGACACGATAGTTGGAAGATGCATGC
9473235 TTA
1 TTA
9473238 ATTTATATCC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (56 bp):
TTAGTCAATTCTAATCAGATGATAACTAATGGACACGATAGTTGGAAGATGCATGC
Found at i:9477290 original size:24 final size:24
Alignment explanation
Indices: 9477228--9477295 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
9477218 TTCAGGCTCT
* * *
9477228 TCAACAACAGTTTGAGTAGGTGCC
1 TCAACAATAGCTTGAGTGGGTGCC
* * *
9477252 TCGACAATAGGTTGAGTGGGTGCT
1 TCAACAATAGCTTGAGTGGGTGCC
* *
9477276 TCAACAGTAGCTTGAATGGG
1 TCAACAATAGCTTGAGTGGG
9477296 CTCCTTGGCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (24 bp):
TCAACAATAGCTTGAGTGGGTGCC
Found at i:9479358 original size:22 final size:23
Alignment explanation
Indices: 9479308--9479370 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 23
9479298 GTGCTTAAAA
*
9479308 TAAATATGT-TATATATATTAACT
1 TAAA-ATGTATATATATAATAACT
*
9479331 T-TAATGTATATATATAATAA-T
1 TAAAATGTATATATATAATAACT
*
9479352 TAAAATG-A-ATGTATAATAA
1 TAAAATGTATATATATAATAA
9479371 AAGAAAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 10 0.29
21 7 0.21
22 16 0.47
23 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (23 bp):
TAAAATGTATATATATAATAACT
Found at i:9484842 original size:5 final size:5
Alignment explanation
Indices: 9484821--9484859 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
9484811 CACCAACATG
* *
9484821 AAAAG AAAAC AATAAC AGAAC AAAAC AAAAC AAAAC AAA
1 AAAAC AAAAC AA-AAC AAAAC AAAAC AAAAC AAAAC AAA
9484860 GAGCAACTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.77, C:0.15, G:0.05, T:0.03
Consensus pattern (5 bp):
AAAAC
Found at i:9485115 original size:30 final size:30
Alignment explanation
Indices: 9485044--9485115 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
9485034 TGATAGGGGG
* * *
9485044 ATGGAAAATGGCAGCTCCGTTAAGTTTGTA
1 ATGGAAAATGGTAGCTCCGTTAAGTCTATA
* * *
9485074 ACGGAAAATGGTAGCTTCGTTACGTCTATA
1 ATGGAAAATGGTAGCTCCGTTAAGTCTATA
9485104 ATGGAAAATGGT
1 ATGGAAAATGGT
9485116 TAGTGGCAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
ATGGAAAATGGTAGCTCCGTTAAGTCTATA
Found at i:9485450 original size:9 final size:9
Alignment explanation
Indices: 9485436--9485469 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
9485426 ATTTTCGAAT
*
9485436 TCGAATAAC
1 TCGAATAAA
*
9485445 TCGAATAAT
1 TCGAATAAA
9485454 TCGAATAAA
1 TCGAATAAA
9485463 TCGAATA
1 TCGAATA
9485470 CCAAACTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAA
Found at i:9485454 original size:18 final size:18
Alignment explanation
Indices: 9485433--9485469 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
9485423 TTAATTTTCG
*
9485433 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
9485451 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
9485469 A
1 A
9485470 CCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:9485528 original size:22 final size:22
Alignment explanation
Indices: 9485483--9485528 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
9485473 AACTATAATA
*
9485483 TTTTACCTTTTACCCCAATTTT
1 TTTTACCTTTTACCCCAATCTT
*
9485505 TTTTA-CTTTTCCCCCAATACTT
1 TTTTACCTTTTACCCCAAT-CTT
9485527 TT
1 TT
9485529 ACTCCCTCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTTACCTTTTACCCCAATCTT
Found at i:9486124 original size:19 final size:19
Alignment explanation
Indices: 9486100--9486138 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
9486090 AAAGTTAATA
9486100 GCAAATTTGATTACGATGG
1 GCAAATTTGATTACGATGG
9486119 GCAAATTTGATTACGATGG
1 GCAAATTTGATTACGATGG
9486138 G
1 G
9486139 TGACAGTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (19 bp):
GCAAATTTGATTACGATGG
Found at i:9488559 original size:6 final size:6
Alignment explanation
Indices: 9488548--9488580 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
9488538 TCAGGGCCTG
9488548 AAACAC AAACAC AAACAC AAACAC AAACAC AAA
1 AAACAC AAACAC AAACAC AAACAC AAACAC AAA
9488581 TAAATTGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAC
Found at i:9489994 original size:56 final size:56
Alignment explanation
Indices: 9489908--9490022 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
9489898 TTAGAATTAG
9489908 TTAGTCAATTCTAATCAGATGATAACTAATGGACACGATAGTTGGAAGATGCATGC
1 TTAGTCAATTCTAATCAGATGATAACTAATGGACACGATAGTTGGAAGATGCATGC
9489964 TTAGTCAATTCTAATCAGATGATAACTAATGGACACGATAGTTGGAAGATGCATGC
1 TTAGTCAATTCTAATCAGATGATAACTAATGGACACGATAGTTGGAAGATGCATGC
9490020 TTA
1 TTA
9490023 ATTTATATCC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (56 bp):
TTAGTCAATTCTAATCAGATGATAACTAATGGACACGATAGTTGGAAGATGCATGC
Found at i:9494072 original size:24 final size:24
Alignment explanation
Indices: 9494010--9494077 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
9494000 TTCAGGCTCT
* * *
9494010 TCAACAACAGTTTGAGTAGGTGCC
1 TCAACAATAGCTTGAGTGGGTGCC
* * *
9494034 TCGACAATAGGTTGAGTGGGTGCT
1 TCAACAATAGCTTGAGTGGGTGCC
* *
9494058 TCAACAGTAGCTTGAATGGG
1 TCAACAATAGCTTGAGTGGG
9494078 CTCCTTGGCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (24 bp):
TCAACAATAGCTTGAGTGGGTGCC
Found at i:9496139 original size:22 final size:23
Alignment explanation
Indices: 9496089--9496151 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 23
9496079 GTGCTTAAAA
*
9496089 TAAATATGT-TATATATATTAACT
1 TAAA-ATGTATATATATAATAACT
*
9496112 T-TAATGTATATATATAATAA-T
1 TAAAATGTATATATATAATAACT
*
9496133 TAAAATG-A-ATGTATAATAA
1 TAAAATGTATATATATAATAA
9496152 AAGAAAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 10 0.29
21 7 0.21
22 16 0.47
23 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (23 bp):
TAAAATGTATATATATAATAACT
Found at i:9501073 original size:44 final size:44
Alignment explanation
Indices: 9501022--9501446 Score: 207
Period size: 44 Copynumber: 9.7 Consensus size: 44
9501012 ATTACAGATA
9501022 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
* * * ** **
9501066 CTATCTCCTTGAGATTACAGTGGAGCGGATT-AAAATAAAAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA-ATC
* * * * * * * *
9501110 TTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATC-AG--GTC
1 TTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAGTAATC
** ** * *
9501151 TTATCTCCCTGAGATTACAGTGGAATAGACCGAAG-AATTTCAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTA-GT-A-ATC
*
9501197 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
* ** *
9501241 CTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAAG-GATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--AGTAATC
* * * * * * *
9501285 TTATCTCTCT-AAAGTTACAGTAGAGTAGATCGTATC-AGGT--T-
1 TTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTA-GTAATC
* ** * **
9501326 TTATCTTCCTGAGATTACAGTGGA--ATGAACCGAAGAATTTTAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCA-G-ATTGAAG-CTAGTA-ATC
*
9501372 TTATCTCCTTGAGATTACA-TCGGAGCAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGT-GGAGCAGATTGAAGCTAGTAATC
* ** * *
9501416 CTATCTGTCTGATATTACAGTGGAGCGGATT
1 TTATCTCCCTGAGATTACAGTGGAGCAGATT
9501447 AAAATAAAAG
Statistics
Matches: 278, Mismatches: 73, Indels: 60
0.68 0.18 0.15
Matches are distributed among these distances:
39 1 0.00
40 1 0.00
41 49 0.18
42 7 0.03
43 13 0.05
44 135 0.49
45 11 0.04
46 58 0.21
47 2 0.01
48 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
Found at i:9501298 original size:175 final size:175
Alignment explanation
Indices: 9501007--9501552 Score: 884
Period size: 175 Copynumber: 3.1 Consensus size: 175
9500997 ACAGATCAGT
* * *
9501007 GAAGAATTACAGATATTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCT
1 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
*
9501072 CCTTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTAGAGTA
66 CCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTAGAGTA
*
9501137 GATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACC
131 GATCGTATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACC
9501182 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
1 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
* *
9501247 CCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTA
66 CCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTAGAGTA
* *
9501312 GATCGTATCAGGTTTTATCTTCCTGAGATTACAGTGGAAT-GAACC
131 GATCGTATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAG-ACC
* * *
9501357 GAAGAATTTTAGATCTTATCTCCTTGAGATTACATCGGAGCAGATTGAAGCTAGTAATCCTATCT
1 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
** * *
9501422 GTCTGATATTACAGTGGAGCGGATTAAAATAAAAGATCTTA--TCTCTAAAGTTACAGTAGAGCA
66 CCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTAGAGTA
*
9501485 GATCGTATCAGGTCTTATTTCCCTGAGATTACAGTGGAATAGACC
131 GATCGTATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACC
* *
9501530 GAAGAATGTCAGACCTTA-CTCCC
1 GAAGAATTTCAGATCTTATCTCCC
9501553 CCAGCGGTGC
Statistics
Matches: 344, Mismatches: 25, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
172 4 0.01
173 76 0.22
174 2 0.01
175 262 0.76
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (175 bp):
GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
CCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTAGAGTA
GATCGTATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACC
Found at i:9503378 original size:17 final size:16
Alignment explanation
Indices: 9503353--9503393 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
9503343 TTCAAAAGGC
9503353 TTTTAATAAATCAAAT
1 TTTTAATAAATCAAAT
* *
9503369 TTTATAATAATTCATAT
1 TTT-TAATAAATCAAAT
9503386 TTTTAATA
1 TTTTAATA
9503394 TCATTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTTAATAAATCAAAT
Found at i:9503424 original size:21 final size:22
Alignment explanation
Indices: 9503389--9503429 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9503379 TTCATATTTT
**
9503389 TAATATCATTTTAA-TATTGGC
1 TAATATCATCATAATTATTGGC
9503410 TAATATCATCATAATTATTG
1 TAATATCATCATAATTATTG
9503430 CTATTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (22 bp):
TAATATCATCATAATTATTGGC
Found at i:9505428 original size:43 final size:43
Alignment explanation
Indices: 9505381--9505466 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
9505371 TATGTGATTG
*
9505381 ATATTGAAATGGA-AAAAATGAGAAATGA-ATATGAGATGAGAAA
1 ATATTGAAAT-GACAAAAATGAGAAACGATA-ATGAGATGAGAAA
*
9505424 ATATTGAAATGACAAATATGAGAAACGATAATGAGATGAGAAA
1 ATATTGAAATGACAAAAATGAGAAACGATAATGAGATGAGAAA
9505467 TGAAATATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 2 0.05
43 36 0.92
44 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.22, T:0.21
Consensus pattern (43 bp):
ATATTGAAATGACAAAAATGAGAAACGATAATGAGATGAGAAA
Found at i:9510664 original size:138 final size:138
Alignment explanation
Indices: 9510416--9510693 Score: 448
Period size: 138 Copynumber: 2.0 Consensus size: 138
9510406 CTGTTTTTTG
* *
9510416 AGACAAAATCAACATAAGCAATTGGAAAATTCCTACTTGAAGTAAGTCTAAACATACATAAAGAT
1 AGACAAAATCAACAAAAGCAATTGGAAAAATCCTACTTGAAGTAAGTCTAAACATACATAAAGAT
* *
9510481 CAGCATCCATTTACAAGCTTTTTAACAGTAAAGAACAAAATCAAGCTTCTGTTAATAGAGAAAAC
66 CAGCATCCATTTACAAGCTTTTTAACAGTAAACAACAAAATCAAGCTGCTGTTAATAGAGAAAAC
9510546 ATTCTATA
131 ATTCTATA
**
9510554 AGACAAAATCAACAAAAGCAATTGGAAAAATCCTACTTTTAGTAAGTCTAAACATACATAAAGAT
1 AGACAAAATCAACAAAAGCAATTGGAAAAATCCTACTTGAAGTAAGTCTAAACATACATAAAGAT
* * * * * *
9510619 CAGCATCCGTTTACAAGCTTTTTGACATTGAACAATAAAATCAAGCTGCTGTTAATAGAGAAATC
66 CAGCATCCATTTACAAGCTTTTTAACAGTAAACAACAAAATCAAGCTGCTGTTAATAGAGAAAAC
9510684 ATTCTATA
131 ATTCTATA
9510692 AG
1 AG
9510694 CGACGCAATA
Statistics
Matches: 128, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 128 1.00
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.27
Consensus pattern (138 bp):
AGACAAAATCAACAAAAGCAATTGGAAAAATCCTACTTGAAGTAAGTCTAAACATACATAAAGAT
CAGCATCCATTTACAAGCTTTTTAACAGTAAACAACAAAATCAAGCTGCTGTTAATAGAGAAAAC
ATTCTATA
Found at i:9513819 original size:14 final size:14
Alignment explanation
Indices: 9513800--9513830 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
9513790 CTGTTCTCGA
9513800 CAAAATGGTGTGGC
1 CAAAATGGTGTGGC
9513814 CAAAATGGTGTGGC
1 CAAAATGGTGTGGC
9513828 CAA
1 CAA
9513831 GAGGAAGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.19
Consensus pattern (14 bp):
CAAAATGGTGTGGC
Found at i:9520294 original size:30 final size:30
Alignment explanation
Indices: 9520260--9520326 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
9520250 GTGTCTCAGC
*
9520260 CGTGTTTGACACACGGCCACGCGATACGGA
1 CGTGTGTGACACACGGCCACGCGATACGGA
* * *
9520290 CGTGTGTGACACACGTCCATGCGATACGGC
1 CGTGTGTGACACACGGCCACGCGATACGGA
9520320 CGTGTGT
1 CGTGTGT
9520327 CCCTCGTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.21
Consensus pattern (30 bp):
CGTGTGTGACACACGGCCACGCGATACGGA
Found at i:9525308 original size:28 final size:27
Alignment explanation
Indices: 9525277--9525371 Score: 113
Period size: 28 Copynumber: 3.4 Consensus size: 27
9525267 CAATTTCGAT
9525277 TAGTTGGGTGACCAAAAAAAATGGGCAA
1 TAGTTGGGTGACCAAAAAAAA-GGGCAA
**
9525305 TAGTTGGGTGACCAAATTAAAAAAATG--A
1 TAGTTGGGTGACC-AA--AAAAAAGGGCAA
*
9525333 TAGTTGGGTGACCAATAAAAAGGGCAA
1 TAGTTGGGTGACCAAAAAAAAGGGCAA
9525360 TAGTTGGGTGAC
1 TAGTTGGGTGAC
9525372 ATGTGGTATA
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
25 6 0.11
27 15 0.26
28 27 0.47
29 2 0.04
30 1 0.02
31 6 0.11
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.22
Consensus pattern (27 bp):
TAGTTGGGTGACCAAAAAAAAGGGCAA
Found at i:9528043 original size:33 final size:33
Alignment explanation
Indices: 9527997--9528110 Score: 146
Period size: 33 Copynumber: 3.5 Consensus size: 33
9527987 TCTTGACAAA
9527997 CTCT-TTCTGTGTTTACTATCCCAGCGAGCTAT
1 CTCTGTTCTGTGTTTACTATCCCAGCGAGCTAT
9528029 CTCTGTTCTGTGTTTACTATCCCAGC-AGACTAT
1 CTCTGTTCTGTGTTTACTATCCCAGCGAG-CTAT
* *
9528062 CTCTATTTTGTGTTTACTATCCCAATG-GA-CTAT
1 CTCTGTTCTGTGTTTACTATCCC-A-GCGAGCTAT
*
9528095 CTATGTTCTGTGTTTA
1 CTCTGTTCTGTGTTTA
9528111 AGTCCTAGCA
Statistics
Matches: 72, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
32 6 0.08
33 63 0.88
34 1 0.01
35 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.44
Consensus pattern (33 bp):
CTCTGTTCTGTGTTTACTATCCCAGCGAGCTAT
Found at i:9528110 original size:66 final size:65
Alignment explanation
Indices: 9528004--9528132 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 65
9527994 AAACTCTTTC
* *
9528004 TGTGTTTACTATCCCAGCGAGCTATCTCTGTTCTGTGTTTACTA-TCCCAGCAGACTATCTCTAT
1 TGTGTTTACTATCCCAGCGAGCTATCTATGTTCTGTGTTTA--AGTCCCAGCAAACTATCTCTAT
9528068 TT
64 TT
*
9528070 TGTGTTTACTATCCCAATG-GA-CTATCTATGTTCTGTGTTTAAGTCCTAGCAAACTATCTCTAT
1 TGTGTTTACTATCCC-A-GCGAGCTATCTATGTTCTGTGTTTAAGTCCCAGCAAACTATCTCTAT
9528133 GGATGCCATG
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
64 1 0.02
65 18 0.32
66 34 0.60
67 3 0.05
68 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (65 bp):
TGTGTTTACTATCCCAGCGAGCTATCTATGTTCTGTGTTTAAGTCCCAGCAAACTATCTCTATTT
Found at i:9528332 original size:51 final size:51
Alignment explanation
Indices: 9528245--9528374 Score: 122
Period size: 51 Copynumber: 2.5 Consensus size: 51
9528235 ACTTGGATAA
* * *
9528245 CATAACATATTTCATCTATGGTCTTAC-ATCGTATACCTTATACCATG-CTAC
1 CATAGCATCTTTCATCTATGGTCTTACGATCG-ATACCTCATACCA-GACTAC
* * * *
9528296 CATGGCATCTTTCATCTATGGTCTTACGCTAC-ATACCTCATACTAGACTGC
1 CATAGCATCTTTCATCTATGGTCTTACGAT-CGATACCTCATACCAGACTAC
* * *
9528347 CATATCATCTTTCATCTGTGGTTTTACG
1 CATAGCATCTTTCATCTATGGTCTTACG
9528375 TCATATACCA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
50 1 0.02
51 62 0.95
52 1 0.02
53 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.38
Consensus pattern (51 bp):
CATAGCATCTTTCATCTATGGTCTTACGATCGATACCTCATACCAGACTAC
Found at i:9538157 original size:30 final size:30
Alignment explanation
Indices: 9538123--9538186 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
9538113 TTTCTCCAAA
*
9538123 ATGGAGAAATGGAATCATTTGGGAAAGAAT
1 ATGGAGAAATGGAATCATTTAGGAAAGAAT
*
9538153 ATGGAGAAATGGAATCATTTAGGAATGAAT
1 ATGGAGAAATGGAATCATTTAGGAAAGAAT
9538183 ATGG
1 ATGG
9538187 TTTTCTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.42, C:0.03, G:0.30, T:0.25
Consensus pattern (30 bp):
ATGGAGAAATGGAATCATTTAGGAAAGAAT
Found at i:9545728 original size:16 final size:16
Alignment explanation
Indices: 9545720--9545797 Score: 50
Period size: 16 Copynumber: 4.6 Consensus size: 16
9545710 AAAGTACAAG
9545720 AAAATAAAAATAAAAC
1 AAAATAAAAATAAAAC
*
9545736 AAAATAACTAAAAATAAAAAT
1 --AA-AA-TAAAAAT-AAAAC
* **
9545757 AAACATAAAATTAAATT
1 AAA-ATAAAAATAAAAC
*
9545774 AAATTAAAAATAAAAC
1 AAAATAAAAATAAAAC
9545790 -AAATAAAA
1 AAAATAAAA
9545798 TCAATTATCC
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
15 7 0.15
16 9 0.19
17 7 0.15
18 9 0.19
19 5 0.10
20 7 0.15
21 4 0.08
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAAAAATAAAAC
Found at i:9545731 original size:6 final size:6
Alignment explanation
Indices: 9545720--9545788 Score: 54
Period size: 6 Copynumber: 11.5 Consensus size: 6
9545710 AAAGTACAAG
*
9545720 AAAATA AAAATA AAACA-A AATAACTA AAAATA AAAATA AACAT- AAAAT-
1 AAAATA AAAATA AAA-ATA AA-AA-TA AAAATA AAAATA AAAATA AAAATA
* * *
9545768 TAAATT AAATTA AAAATA AAA
1 AAAATA AAAATA AAAATA AAA
9545789 CAAATAAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
5 8 0.16
6 36 0.71
7 4 0.08
8 3 0.06
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:9547283 original size:15 final size:16
Alignment explanation
Indices: 9547253--9547284 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9547243 AACTACTAAG
9547253 AAATAATAAGGAAGAA
1 AAATAATAAGGAAGAA
9547269 AAATAATAA-GAAGAA
1 AAATAATAAGGAAGAA
9547284 A
1 A
9547285 CGAAATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (16 bp):
AAATAATAAGGAAGAA
Found at i:9547488 original size:17 final size:18
Alignment explanation
Indices: 9547452--9547490 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9547442 TAAACTAATG
*
9547452 ATAAGAAAAGTAAGAATA
1 ATAAGAAAAATAAGAATA
*
9547470 ATAAGAAAAATGA-AATA
1 ATAAGAAAAATAAGAATA
9547487 ATAA
1 ATAA
9547491 TAATGATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.69, C:0.00, G:0.13, T:0.18
Consensus pattern (18 bp):
ATAAGAAAAATAAGAATA
Found at i:9547538 original size:23 final size:23
Alignment explanation
Indices: 9547510--9547556 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
9547500 TAATGAAAAG
*
9547510 AAATAATTACAACTAGAAA-AATA
1 AAATAA-TACAACTAAAAATAATA
*
9547533 AAATAATATAACTAAAAATAATA
1 AAATAATACAACTAAAAATAATA
9547556 A
1 A
9547557 TATTAAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.23
Consensus pattern (23 bp):
AAATAATACAACTAAAAATAATA
Found at i:9555371 original size:15 final size:15
Alignment explanation
Indices: 9555351--9555380 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9555341 TATGGACATA
9555351 ACTTATTTACATGTT
1 ACTTATTTACATGTT
9555366 ACTTATTTACATGTT
1 ACTTATTTACATGTT
9555381 CATGTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
ACTTATTTACATGTT
Found at i:9555576 original size:8 final size:8
Alignment explanation
Indices: 9555542--9555586 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
9555532 TAAAACATTT
9555542 TTTTTATAA
1 TTTTTAT-A
*
9555551 ATTTTATA
1 TTTTTATA
9555559 -TTTTATA
1 TTTTTATA
*
9555566 TTTTTACA
1 TTTTTATA
9555574 TTTTTATA
1 TTTTTATA
9555582 TTTTT
1 TTTTT
9555587 TTAACTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
7 7 0.22
8 19 0.59
9 6 0.19
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTTATA
Found at i:9556665 original size:13 final size:13
Alignment explanation
Indices: 9556649--9556688 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
9556639 TTTAAACCAA
9556649 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
9556662 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
9556675 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
9556688 A
1 A
9556689 TTGTCAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.22
13 13 0.57
14 5 0.22
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:9559157 original size:29 final size:30
Alignment explanation
Indices: 9559095--9559160 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 30
9559085 ACCATAAACT
9559095 CTTTCTTTTTGGTTACATGAACCAATTAATTAA
1 CTTTCTTTTTGGTTACATGAACC-A--AATTAA
* *
9559128 CTTTTTTTTTTGTTACATGAACC-AATTAA
1 CTTTCTTTTTGGTTACATGAACCAAATTAA
9559157 CTTT
1 CTTT
9559161 GATTCATTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 10 0.32
33 21 0.68
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (30 bp):
CTTTCTTTTTGGTTACATGAACCAAATTAA
Found at i:9559291 original size:27 final size:27
Alignment explanation
Indices: 9559244--9559307 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
9559234 AAATATTCTC
*
9559244 TAAATTAAT-AAATATTAATTTATCGA
1 TAAATTAATAAAATATTAATTTATCAA
*
9559270 TAAATTAATAAAATATTCATTTATCAA
1 TAAATTAATAAAATATTAATTTATCAA
*
9559297 TAAACTAATAA
1 TAAATTAATAA
9559308 GCTCAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 9 0.26
27 25 0.74
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATCAA
Found at i:9568971 original size:17 final size:19
Alignment explanation
Indices: 9568937--9568982 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
9568927 TTTACATATT
*
9568937 TTTTTTAATTTGATATTT-A
1 TTTTTTAA-TTGAAATTTGA
9568956 TTTTTTAATT-AAATTTGA
1 TTTTTTAATTGAAATTTGA
9568974 -TTTTTAATT
1 TTTTTTAATT
9568983 TTTTTTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 14 0.56
18 3 0.12
19 8 0.32
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTTTAATTGAAATTTGA
Found at i:9568993 original size:24 final size:23
Alignment explanation
Indices: 9568934--9569009 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 23
9568924 AGCTTTACAT
9568934 ATTTTTTTT-AATTTGATATTT-
1 ATTTTTTTTAAATTTGATATTTA
*
9568955 ATTTTTTAATTAAATTTGATTTTTA
1 ATTTTTT--TTAAATTTGATATTTA
*
9568980 ATTTTTTTTCAAATTTAATCA-TTA
1 ATTTTTTTT-AAATTTGAT-ATTTA
9569004 ATTTTT
1 ATTTTT
9569010 GAAAAATAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
21 7 0.15
23 4 0.09
24 28 0.61
25 7 0.15
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (23 bp):
ATTTTTTTTAAATTTGATATTTA
Found at i:9569118 original size:19 final size:19
Alignment explanation
Indices: 9569096--9569135 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
9569086 TTCATGCTAA
9569096 TTTTT-TAATTTTTATGAAT
1 TTTTTATAATTTTTAT-AAT
*
9569115 TTTTTATATTTTTTATAAT
1 TTTTTATAATTTTTATAAT
9569134 TT
1 TT
9569136 ATATTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAT
Found at i:9569120 original size:11 final size:10
Alignment explanation
Indices: 9569096--9569135 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
9569086 TTCATGCTAA
9569096 TTTTT-TAA-
1 TTTTTATAAT
9569104 TTTTTATGAAT
1 TTTTTAT-AAT
9569115 TTTTTAT-AT
1 TTTTTATAAT
9569124 TTTTTATAAT
1 TTTTTATAAT
9569134 TT
1 TT
9569136 ATATTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 5 0.18
9 10 0.36
10 6 0.21
11 7 0.25
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:9569559 original size:9 final size:9
Alignment explanation
Indices: 9569534--9569692 Score: 70
Period size: 9 Copynumber: 16.0 Consensus size: 9
9569524 AATAAAAGTA
9569534 ATAAAAAAT
1 ATAAAAAAT
*
9569543 CTAGAAAAAT
1 ATA-AAAAAT
*
9569553 ATAAAAATT
1 ATAAAAAAT
*
9569562 ATTAAAAAT
1 ATAAAAAAT
*
9569571 TTAAAAATAT
1 ATAAAAA-AT
9569581 ATAAAGAAAAT
1 AT-AA-AAAAT
9569592 ATCAAAATTAAT
1 AT-AAAA--AAT
*
9569604 -TAAAAAGTT
1 ATAAAAA-AT
*
9569613 AGAAAAAGAAT
1 A-TAAAA-AAT
9569624 ATAAAAAAT
1 ATAAAAAAT
9569633 ATAAGAAAATT
1 ATAA-AAAA-T
*
9569644 ATTTAAAATAT
1 A--TAAAAAAT
*
9569655 ATAAAAATTTT
1 ATAAAAA--AT
*
9569666 ATTAAAAATT
1 A-TAAAAAAT
9569676 ATAAAAAAT
1 ATAAAAAAT
9569685 -TAAAAAAT
1 ATAAAAAAT
9569693 TCCTTTTAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 35
0.69 0.10 0.21
Matches are distributed among these distances:
8 9 0.08
9 39 0.34
10 28 0.24
11 21 0.18
12 16 0.14
13 3 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:9569567 original size:10 final size:10
Alignment explanation
Indices: 9569554--9569686 Score: 60
Period size: 10 Copynumber: 12.9 Consensus size: 10
9569544 TAGAAAAATA
9569554 TAAAAATTAT
1 TAAAAATTAT
9569564 TAAAAA-T-T
1 TAAAAATTAT
9569572 TAAAAATATAT
1 TAAAAAT-TAT
* *
9569583 AAAGAAAATA-
1 TAA-AAATTAT
*
9569593 TCAAAATTAAT
1 TAAAAATT-AT
9569604 TAAAAAGTTA-
1 TAAAAA-TTAT
* **
9569614 GAAAAAGAAT
1 TAAAAATTAT
*
9569624 ATAAAAAATAT
1 -TAAAAATTAT
*
9569635 AAGAAAATTAT
1 TA-AAAATTAT
*
9569646 TTAAAA-TAT
1 TAAAAATTAT
9569655 ATAAAAATTTTAT
1 -TAAAAA--TTAT
9569668 TAAAAATTAT
1 TAAAAATTAT
*
9569678 AAAAAATTA
1 TAAAAATTA
9569687 AAAAATTCCT
Statistics
Matches: 91, Mismatches: 18, Indels: 28
0.66 0.13 0.20
Matches are distributed among these distances:
8 7 0.08
9 9 0.10
10 36 0.40
11 25 0.27
12 11 0.12
13 3 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:9569627 original size:43 final size:39
Alignment explanation
Indices: 9569536--9569651 Score: 110
Period size: 43 Copynumber: 2.9 Consensus size: 39
9569526 TAAAAGTAAT
* * *
9569536 AAAAAATCTAGAAAAATATAAAAATT-ATTAAAAATTTA
1 AAAAAATATAAAAAAATATAAAAATTAATTAAAAATTGA
* *
9569574 AAAATATATAAAGAAAATATCAAAATTAATTAAAAAGTTAGA
1 AAAAAATATAAA-AAAATATAAAAATTAATTAAAAA-TT-GA
*
9569616 AAAAGAATAT-AAAAAATATAAGAAAATTATTTAAAA
1 AAAA-AATATAAAAAAATAT-A-AAAATTAATTAAAA
9569652 TATATAAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
38 9 0.14
39 13 0.21
40 8 0.13
41 9 0.14
42 7 0.11
43 17 0.27
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (39 bp):
AAAAAATATAAAAAAATATAAAAATTAATTAAAAATTGA
Found at i:9569653 original size:20 final size:19
Alignment explanation
Indices: 9569534--9569686 Score: 89
Period size: 21 Copynumber: 7.6 Consensus size: 19
9569524 AATAAAAGTA
*
9569534 ATAAAAAATCTA-GAAAAAT
1 ATAAAAAAT-TATTAAAAAT
9569553 AT-AAAAATTATTAAAAAT
1 ATAAAAAATTATTAAAAAT
* *
9569571 -TTAAAAA-TATATAAAGAAA
1 ATAAAAAATTAT-TAAA-AAT
*
9569590 ATATCAAAATTAATTAAAAAGTT
1 ATA-AAAAATT-ATTAAAAA--T
* * *
9569613 AGAAAAAGAATATAAAAAAT
1 ATAAAAA-ATTATTAAAAAT
9569633 ATAAGAAAATTATTTAAAATAT
1 ATAA-AAAATTA-TTAAAA-AT
*
9569655 ATAAAAATTTTATTAAAAATT
1 ATAAAAA-ATTATTAAAAA-T
9569676 ATAAAAAATTA
1 ATAAAAAATTA
9569687 AAAAATTCCT
Statistics
Matches: 104, Mismatches: 14, Indels: 31
0.70 0.09 0.21
Matches are distributed among these distances:
17 6 0.06
18 21 0.20
19 4 0.04
20 12 0.12
21 31 0.30
22 24 0.23
23 6 0.06
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (19 bp):
ATAAAAAATTATTAAAAAT
Found at i:9569816 original size:17 final size:17
Alignment explanation
Indices: 9569778--9569816 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
9569768 AAGTATAAAA
*
9569778 TTTATTAAAATATTGAT
1 TTTATTAAAATATTAAT
9569795 TTTATTAAAATA-TAAT
1 TTTATTAAAATATTAAT
9569811 TATTAT
1 T-TTAT
9569817 AATTATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTATTAAAATATTAAT
Found at i:9573026 original size:13 final size:14
Alignment explanation
Indices: 9573000--9573032 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
9572990 CATTAATTAA
9573000 AACTAAAGTTAACT
1 AACTAAAGTTAACT
9573014 AACTAAA-TTAACT
1 AACTAAAGTTAACT
9573027 AACTAA
1 AACTAA
9573033 TGCATTAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (14 bp):
AACTAAAGTTAACT
Found at i:9574877 original size:20 final size:20
Alignment explanation
Indices: 9574834--9574918 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
9574824 AATTTGTTTG
*
9574834 AAAATAATTTTGA-TGTATT
1 AAAATAATTTTGACTTTATT
*
9574853 AAAATAATTTTAACTTTATT
1 AAAATAATTTTGACTTTATT
* **
9574873 GAAATAATTTTGACTTGGTT
1 AAAATAATTTTGACTTTATT
* * *
9574893 AAAATCATTTTCACTTGATTT
1 AAAATAATTTTGACTTTA-TT
9574914 AAAAT
1 AAAAT
9574919 TGTTTCAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
19 12 0.22
20 35 0.65
21 7 0.13
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (20 bp):
AAAATAATTTTGACTTTATT
Found at i:9575623 original size:92 final size:92
Alignment explanation
Indices: 9575466--9575637 Score: 299
Period size: 92 Copynumber: 1.9 Consensus size: 92
9575456 ATATGACCTG
* * *
9575466 ACGTCATCTTTACCTACGTACAATAATTCAATTATAGAAACGATATTAGTTTTCACCCGATCACA
1 ACGTCATCTTTACCTACATACAATAATTCAAGTATAGAAACGATATTAGTTTTCACCCAATCACA
9575531 TGAAAAACACATAATTAGGATGAACCA
66 TGAAAAACACATAATTAGGATGAACCA
* *
9575558 ACGTCATCTTTAGCTACATACGATAATTCAAGTATAGAAACGATATTAGTTTTCACCCAATCACA
1 ACGTCATCTTTACCTACATACAATAATTCAAGTATAGAAACGATATTAGTTTTCACCCAATCACA
9575623 TGAAAAACACATAAT
66 TGAAAAACACATAAT
9575638 CATGAAAACA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (92 bp):
ACGTCATCTTTACCTACATACAATAATTCAAGTATAGAAACGATATTAGTTTTCACCCAATCACA
TGAAAAACACATAATTAGGATGAACCA
Found at i:9580153 original size:12 final size:12
Alignment explanation
Indices: 9580144--9580168 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9580134 TTCCTCTTTG
9580144 TCATTTTCTTCT
1 TCATTTTCTTCT
9580156 TCATTTTCTTCT
1 TCATTTTCTTCT
9580168 T
1 T
9580169 ATCTCTTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (12 bp):
TCATTTTCTTCT
Found at i:9580168 original size:27 final size:27
Alignment explanation
Indices: 9580133--9580193 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
9580123 TCATCTTCTA
* *
9580133 TTTCCTCTT-TGTCATTTTCTTCTTCAT
1 TTTCCTCTTATCTC-TTCTCTTCTTCAT
* *
9580160 TTTCTTCTTATCTCTTCTCTTCTTCCT
1 TTTCCTCTTATCTCTTCTCTTCTTCAT
9580187 TTTCCTC
1 TTTCCTC
9580194 ACCTCCCGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.05, C:0.31, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTCCTCTTATCTCTTCTCTTCTTCAT
Found at i:9594338 original size:14 final size:14
Alignment explanation
Indices: 9594319--9594345 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9594309 CATTTCTTGG
9594319 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
9594333 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
9594346 ACTGGACCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:9595787 original size:28 final size:28
Alignment explanation
Indices: 9595719--9595788 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
9595709 GCATAATCTA
* *
9595719 GTGGAAGTCCTTCAGGACTATCGTATTT
1 GTGGAAGTCCATCAGGACTATCATATTT
* * *
9595747 TTTGAAGTTCATCAGGACTATCATATTT
1 GTGGAAGTCCATCAGGACTATCATATTT
*
9595775 GTGGAAATCCATCA
1 GTGGAAGTCCATCA
9595789 AGACCCTCGT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (28 bp):
GTGGAAGTCCATCAGGACTATCATATTT
Found at i:9597887 original size:51 final size:50
Alignment explanation
Indices: 9597826--9597937 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 50
9597816 ATAACATCCA
* * * * *
9597826 AGAATACACCTGGGCACTGAGTGCCAAGCCCGTAGGCTATACATCCCTCT
1 AGAACACACCTGAGCACTGAGTGCCAAGCCCGTAGGCTACACATCCCCCC
*
9597876 AGAAACACACCTGAGCACTGAGTGCCAAGCCTGTAGGCTACACATCCCCCC
1 AG-AACACACCTGAGCACTGAGTGCCAAGCCCGTAGGCTACACATCCCCCC
9597927 AGAACACACCT
1 AGAACACACCT
9597938 AAATCTCCGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 11 0.20
51 44 0.80
ACGTcount: A:0.29, C:0.35, G:0.20, T:0.16
Consensus pattern (50 bp):
AGAACACACCTGAGCACTGAGTGCCAAGCCCGTAGGCTACACATCCCCCC
Found at i:9601107 original size:32 final size:32
Alignment explanation
Indices: 9601070--9601141 Score: 119
Period size: 32 Copynumber: 2.2 Consensus size: 32
9601060 GAACATGATA
9601070 AATTTT-AATTAATTTTATAGTTAATTTTGAAT
1 AATTTTGAA-TAATTTTATAGTTAATTTTGAAT
*
9601102 AATTTTGAATAATTTTATAGTTAATTTTGATT
1 AATTTTGAATAATTTTATAGTTAATTTTGAAT
9601134 AATTTTGA
1 AATTTTGA
9601142 CTATTTTCGA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 36 0.95
33 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (32 bp):
AATTTTGAATAATTTTATAGTTAATTTTGAAT
Found at i:9601140 original size:10 final size:10
Alignment explanation
Indices: 9601065--9601141 Score: 64
Period size: 10 Copynumber: 7.3 Consensus size: 10
9601055 AATATGAACA
*
9601065 TGATAAATTT
1 TGATTAATTT
*
9601075 TAATTAATTT
1 TGATTAATTT
*
9601085 TATAGTTAATTT
1 T-GA-TTAATTT
*
9601097 TGAATAATTT
1 TGATTAATTT
*
9601107 TGAATAATTT
1 TGATTAATTT
*
9601117 TATAGTTAATTT
1 T-GA-TTAATTT
9601129 TGATTAATTT
1 TGATTAATTT
9601139 TGA
1 TGA
9601142 CTATTTTCGA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
10 36 0.65
11 4 0.07
12 15 0.27
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (10 bp):
TGATTAATTT
Found at i:9628639 original size:32 final size:32
Alignment explanation
Indices: 9628603--9628674 Score: 119
Period size: 32 Copynumber: 2.2 Consensus size: 32
9628593 GAACATGATG
9628603 AATTTT-AATTAATTTTATAGTTAATTTTGACT
1 AATTTTGAA-TAATTTTATAGTTAATTTTGACT
*
9628635 AATTTTGAATAATTTTATAGTTAATTTTGATT
1 AATTTTGAATAATTTTATAGTTAATTTTGACT
9628667 AATTTTGA
1 AATTTTGA
9628675 CTATTTTCGA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 36 0.95
33 2 0.05
ACGTcount: A:0.35, C:0.01, G:0.08, T:0.56
Consensus pattern (32 bp):
AATTTTGAATAATTTTATAGTTAATTTTGACT
Found at i:9628673 original size:10 final size:10
Alignment explanation
Indices: 9628598--9628674 Score: 64
Period size: 10 Copynumber: 7.3 Consensus size: 10
9628588 AATATGAACA
*
9628598 TGATGAATTT
1 TGATTAATTT
*
9628608 TAATTAATTT
1 TGATTAATTT
*
9628618 TATAGTTAATTT
1 T-GA-TTAATTT
*
9628630 TGACTAATTT
1 TGATTAATTT
*
9628640 TGAATAATTT
1 TGATTAATTT
*
9628650 TATAGTTAATTT
1 T-GA-TTAATTT
9628662 TGATTAATTT
1 TGATTAATTT
9628672 TGA
1 TGA
9628675 CTATTTTCGA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
10 35 0.65
11 4 0.07
12 15 0.28
ACGTcount: A:0.34, C:0.01, G:0.10, T:0.55
Consensus pattern (10 bp):
TGATTAATTT
Found at i:9632011 original size:37 final size:37
Alignment explanation
Indices: 9631970--9632082 Score: 92
Period size: 37 Copynumber: 3.1 Consensus size: 37
9631960 ATTGTCGTTT
9631970 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATA
1 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATA
* * ** * ** **
9632007 TAAAGATTTGGTCAAGCTATT--TAATGTGCCA---ATA
1 TAAAGGTTTAG-CTTG-GATTGGTAACCTTACATGTATA
9632041 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATA
1 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATA
9632078 TAAAG
1 TAAAG
9632083 ATTTGGCCAA
Statistics
Matches: 51, Mismatches: 18, Indels: 14
0.61 0.22 0.17
Matches are distributed among these distances:
32 3 0.06
33 2 0.04
34 18 0.35
37 23 0.45
38 2 0.04
39 3 0.06
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (37 bp):
TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATA
Found at i:9632086 original size:71 final size:71
Alignment explanation
Indices: 9631970--9632150 Score: 308
Period size: 71 Copynumber: 2.5 Consensus size: 71
9631960 ATTGTCGTTT
*
9631970 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATAAAGATTTGGTCAAGCTATTTAATGTG
1 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATAAAGATTTGGCCAAGCTATTTAATGTG
9632035 CCAATA
66 CCAATA
9632041 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATAAAGATTTGGCCAAGCTATTTAATGTG
1 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATAAAGATTTGGCCAAGCTATTTAATGTG
9632106 CCAATA
66 CCAATA
* ** * *
9632112 CAAAGGTTTAGCTTGGACAGGTAACCTGACATGAATATA
1 TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATA
9632151 TGATCAGCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 104 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (71 bp):
TAAAGGTTTAGCTTGGATTGGTAACCTTACATGTATATAAAGATTTGGCCAAGCTATTTAATGTG
CCAATA
Found at i:9634858 original size:21 final size:21
Alignment explanation
Indices: 9634818--9634868 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
9634808 TTTAACAACT
9634818 TTAATT-AATCAATTTATTTAA
1 TTAATTAAATCAATTTATTT-A
9634839 TTAATTAAATCCAA-TT-TTTA
1 TTAATTAAAT-CAATTTATTTA
*
9634859 TTAATGAAAT
1 TTAATTAAAT
9634869 ATTTAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 10 0.37
21 9 0.33
22 5 0.19
23 3 0.11
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (21 bp):
TTAATTAAATCAATTTATTTA
Found at i:9638322 original size:19 final size:21
Alignment explanation
Indices: 9638284--9638325 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 21
9638274 TTTTCATGGC
9638284 ATAAATTTTAAAATTAAAATTA
1 ATAAATTTT-AAATTAAAATTA
9638306 ATAAATTTT-AA-TAAAATTA
1 ATAAATTTTAAATTAAAATTA
9638325 A
1 A
9638326 ATATTTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
22 9 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAATTTTAAATTAAAATTA
Found at i:9639454 original size:22 final size:22
Alignment explanation
Indices: 9639429--9639488 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
9639419 ATTTTATTCT
9639429 AATTGTGATTCGTTATATGATA
1 AATTGTGATTCGTTATATGATA
9639451 AATTGTGATTCGTTATATGATA
1 AATTGTGATTCGTTATATGATA
*
9639473 AATTGTGATTCTTTAT
1 AATTGTGATTCGTTAT
9639489 GACTATTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.48
Consensus pattern (22 bp):
AATTGTGATTCGTTATATGATA
Found at i:9641661 original size:30 final size:30
Alignment explanation
Indices: 9641627--9641689 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
9641617 ACTTATTTTA
9641627 TTGTTAAATTTGTTATTATTTTAAAGACAT
1 TTGTTAAATTTGTTATTATTTTAAAGACAT
* * * *
9641657 TTGTTAATTTTGTTCTTATTTTAGAGGCAT
1 TTGTTAAATTTGTTATTATTTTAAAGACAT
9641687 TTG
1 TTG
9641690 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTTAAATTTGTTATTATTTTAAAGACAT
Found at i:9647997 original size:17 final size:17
Alignment explanation
Indices: 9647943--9648001 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
9647933 TTATATCTAA
*
9647943 TATTTATATTATTAAAT
1 TATTTATATTATTGAAT
* *
9647960 TAAATTTCAAATT-TTGTAT
1 T--ATTT-ATATTATTGAAT
9647979 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
9647996 TATTTA
1 TATTTA
9648002 ATCATATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 4 0.12
17 16 0.48
19 9 0.27
20 4 0.12
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:9648554 original size:23 final size:22
Alignment explanation
Indices: 9648502--9648556 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
9648492 CACCCCTAAT
9648502 TATTATATATAAGTAAATTACGA
1 TATTATA-ATAAGTAAATTACGA
* *
9648525 -ATGTATAATAATTACAATTATGA
1 TAT-TATAATAAGTA-AATTACGA
9648548 TATTATAAT
1 TATTATAAT
9648557 GTACTTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 8 0.30
23 17 0.63
24 2 0.07
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (22 bp):
TATTATAATAAGTAAATTACGA
Found at i:9653792 original size:29 final size:29
Alignment explanation
Indices: 9653755--9653815 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
9653745 ACGGCTTGGG
*
9653755 ACACAGGCTGTCACACGGCCGTGTGTCAC
1 ACACAGGCTGTCACACGGCCATGTGTCAC
* * *
9653784 ACACGGGCTGTTACACGGTCATGTGTCAC
1 ACACAGGCTGTCACACGGCCATGTGTCAC
9653813 ACA
1 ACA
9653816 TGGGTAGCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (29 bp):
ACACAGGCTGTCACACGGCCATGTGTCAC
Done.