Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008228.1 Hibiscus syriacus cultivar Beakdansim tig00110864_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: 3739947
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 20
Found at i:2405154 original size:23 final size:23
Alignment explanation
Indices: 2405078--2405155 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
2405068 CATTATGGAC
*
2405078 ATTATTATATGGCACTACGGTGTA
1 ATTA-TATGTGGCACTACGGTGTA
* * * *
2405102 ATTCTACGCGGCACTCCGGTGTA
1 ATTATATGTGGCACTACGGTGTA
* *
2405125 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGTA
2405148 ATTATATG
1 ATTATATG
2405156 AGCTGTGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGTA
Found at i:2409690 original size:21 final size:21
Alignment explanation
Indices: 2409664--2409720 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2409654 TTTTGGGCAG
*
2409664 AGTGCATCGATGCATATTCAT
1 AGTGCACCGATGCATATTCAT
2409685 AGTGCACCGATGCATATTCAT
1 AGTGCACCGATGCATATTCAT
2409706 AGTGCACCGATGCAT
1 AGTGCACCGATGCAT
2409721 CAAGGTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
AGTGCACCGATGCATATTCAT
Found at i:2411291 original size:23 final size:23
Alignment explanation
Indices: 2411259--2411323 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
2411249 CAGCTCGTAT
*
2411259 AATTGTACCGAAGTGCCATGTAG
1 AATTGCACCGAAGTGCCATGTAG
* *
2411282 AATTGCACCGGAGTGCCGTGTAG
1 AATTGCACCGAAGTGCCATGTAG
*
2411305 AATTGCACCGTAGTGCCAT
1 AATTGCACCGAAGTGCCAT
2411324 ATAATAATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCATGTAG
Found at i:2411509 original size:103 final size:103
Alignment explanation
Indices: 2411338--2411555 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
2411328 TAATGTCCAT
* * *
2411338 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
2411403 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
2411441 AAGGACCACATATCATTCCTTAAAAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACTA
1 AAGGACCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
2411506 GACTTCACACATGTTCCAAAGAATACATATATGTCTCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
2411544 AAGGACCACATA
1 AAGGACCACATA
2411556 GACCCTCGAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAAAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:2414166 original size:103 final size:103
Alignment explanation
Indices: 2413982--2414199 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
2413972 GTCGAGGGTC
2413982 TATGTGGTCCTTCGAGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGAGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
* *
2414047 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
2414085 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGAGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
*
2414150 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
2414188 TATGTGGTCCTT
1 TATGTGGTCCTT
2414200 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGAGACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:2414282 original size:23 final size:23
Alignment explanation
Indices: 2414206--2414283 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
2414196 CCTTATGGAC
*
2414206 ATTATTATATGGCACTACGGTGTA
1 ATTA-TATGTGGCACTACGGTGTA
* * * *
2414230 ATTCTACGCGGCACTCCGGTGTA
1 ATTATATGTGGCACTACGGTGTA
* *
2414253 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGTA
2414276 ATTATATG
1 ATTATATG
2414284 AGCTGTGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGTA
Found at i:2415757 original size:23 final size:22
Alignment explanation
Indices: 2415713--2415795 Score: 62
Period size: 23 Copynumber: 3.6 Consensus size: 22
2415703 AAATCTTATA
* *
2415713 TGGCACTACGGTGCATTGCTACG
1 TGGCACTTCGGTGAATT-CTACG
2415736 TGGCACTTCGGTGTAATTCTACG
1 TGGCACTTCGGTG-AATTCTACG
* *
2415759 CGGTC-TTTCGG-GACAAATTCTACG
1 TGG-CACTTCGGTG---AATTCTACG
2415783 TGGCACTTCGGTG
1 TGGCACTTCGGTG
2415796 CAAATTTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
22 1 0.02
23 25 0.53
24 20 0.43
25 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.29, T:0.30
Consensus pattern (22 bp):
TGGCACTTCGGTGAATTCTACG
Found at i:2415792 original size:24 final size:24
Alignment explanation
Indices: 2415713--2415801 Score: 80
Period size: 24 Copynumber: 3.8 Consensus size: 24
2415703 AAATCTTATA
*
2415713 TGGCACTACGGTGC--ATTGCTACG
1 TGGCACTTCGGTGCAAATT-CTACG
*
2415736 TGGCACTTCGGTG-TAATTCTACG
1 TGGCACTTCGGTGCAAATTCTACG
* *
2415759 CGGTC-TTTCGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-CAAATTCTACG
2415783 TGGCACTTCGGTGCAAATT
1 TGGCACTTCGGTGCAAATT
2415802 TATACGAGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
22 1 0.02
23 25 0.47
24 26 0.49
25 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (24 bp):
TGGCACTTCGGTGCAAATTCTACG
Found at i:2418352 original size:22 final size:22
Alignment explanation
Indices: 2418327--2418380 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
2418317 CTTATTTTTG
2418327 TTTTCATTTTACAAA-AAAACAT
1 TTTTCATTTTACAAACAAAA-AT
*
2418349 TTTTCTAATTTTATAAACAAAAAT
1 TTTTC--ATTTTACAAACAAAAAT
2418373 TTTT-ATTT
1 TTTTCATTT
2418381 CTTAAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.14
22 5 0.18
24 15 0.54
25 4 0.14
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTCATTTTACAAACAAAAAT
Found at i:2420704 original size:33 final size:30
Alignment explanation
Indices: 2420661--2420737 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
2420651 TATTAAGGTA
* * *
2420661 TATTTTATTATATTTAGTATTTTTTTAGTAATT
1 TATTTAATTATATTTA--A-TTGTTTAATAATT
*
2420694 TATTTAATTAT-TTTAATTGTTTAATATTT
1 TATTTAATTATATTTAATTGTTTAATAATT
*
2420723 TATTTAATTAAATTT
1 TATTTAATTATATTT
2420738 TTTTACAGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
29 20 0.53
30 4 0.11
32 4 0.11
33 10 0.26
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (30 bp):
TATTTAATTATATTTAATTGTTTAATAATT
Found at i:2425398 original size:29 final size:29
Alignment explanation
Indices: 2425358--2425422 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
2425348 TTAGATCGGG
*
2425358 AAATATAGTCTGACCGGTATTAAATCGAA
1 AAATATAATCTGACCGGTATTAAATCGAA
* * *
2425387 AAATATAATCTGACCGGTGTTAGATCGAT
1 AAATATAATCTGACCGGTATTAAATCGAA
2425416 AAATATA
1 AAATATA
2425423 CCGGTCATCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (29 bp):
AAATATAATCTGACCGGTATTAAATCGAA
Found at i:2425679 original size:5 final size:6
Alignment explanation
Indices: 2425656--2425686 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
2425646 CAAGTACACT
2425656 TCCCCTC TCCCCC TCCCCC TCCCCC TCCCCC
1 TCCCC-C TCCCCC TCCCCC TCCCCC TCCCCC
2425687 AGTGTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.00, C:0.81, G:0.00, T:0.19
Consensus pattern (6 bp):
TCCCCC
Found at i:2425955 original size:2 final size:2
Alignment explanation
Indices: 2425950--2426003 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
2425940 ATTTTTAAAA
2425950 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2425992 TC TC TC TC TC TC
1 TC TC TC TC TC TC
2426004 AATGGGCTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:2426265 original size:19 final size:19
Alignment explanation
Indices: 2426225--2426264 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
2426215 TTTTTTTGAG
2426225 TTTGAGATTTATTTTTCCT
1 TTTGAGATTTATTTTTCCT
* *
2426244 TTTGAG-TTTTTTTTTTCT
1 TTTGAGATTTATTTTTCCT
2426262 TTT
1 TTT
2426265 TTGGATTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.72
Consensus pattern (19 bp):
TTTGAGATTTATTTTTCCT
Found at i:2438585 original size:3 final size:3
Alignment explanation
Indices: 2438570--2438628 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
2438560 TATTTATATA
* * **
2438570 AAT AAT AAA AAT AAT AAT AAT GA- AAT AAT AATT AA- AGC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
2438614 AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT A
2438629 TTGCAAATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
2 4 0.09
3 38 0.84
4 3 0.07
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:2438637 original size:26 final size:28
Alignment explanation
Indices: 2438578--2438639 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
2438568 TAAATAATAA
*
2438578 AAATAATAATAATGAAATAATAATTAAAGC
1 AAATAATAATAATAAAATAATAATT--AGC
2438608 -AATAATAATAATAAAATAAT-ATT-GC
1 AAATAATAATAATAAAATAATAATTAGC
2438633 AAATAAT
1 AAATAAT
2438640 GATTAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 2 0.07
26 6 0.20
28 3 0.10
29 19 0.63
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (28 bp):
AAATAATAATAATAAAATAATAATTAGC
Found at i:2438876 original size:2 final size:2
Alignment explanation
Indices: 2438869--2438902 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2438859 TTTACCCTAA
2438869 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
2438903 GCTGATAAGG
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:2439542 original size:27 final size:26
Alignment explanation
Indices: 2439500--2439560 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 26
2439490 CTTCTCTTCG
*
2439500 TTTTTTTTTTCTTTCTCTTTGT-CCC
1 TTTTTTTTTTCTTTCTCTCTGTCCCC
2439525 TTTTTTTTCTTCTGTTCTCTCTGTCCCC
1 TTTTTTTT-TTCT-TTCTCTCTGTCCCC
*
2439553 TTTGTTTT
1 TTTTTTTT
2439561 GCAGGATCCG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 8 0.26
26 4 0.13
27 9 0.29
28 10 0.32
ACGTcount: A:0.00, C:0.25, G:0.07, T:0.69
Consensus pattern (26 bp):
TTTTTTTTTTCTTTCTCTCTGTCCCC
Found at i:2439553 original size:28 final size:25
Alignment explanation
Indices: 2439500--2439560 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 25
2439490 CTTCTCTTCG
*
2439500 TTTTTTTTTTCTTTCTCTTTGTCCC
1 TTTTTTTTTTCTTTCTCTCTGTCCC
2439525 TTTTTTTTCTTCTGTTCTCTCTGTCCC
1 TTTTTTTT-TTCT-TTCTCTCTGTCCC
* *
2439552 CTTTGTTTT
1 TTTTTTTTT
2439561 GCAGGATCCG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.26
26 5 0.16
27 18 0.58
ACGTcount: A:0.00, C:0.25, G:0.07, T:0.69
Consensus pattern (25 bp):
TTTTTTTTTTCTTTCTCTCTGTCCC
Found at i:2440069 original size:16 final size:16
Alignment explanation
Indices: 2440042--2440093 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
2440032 GGGCCTGTAA
*
2440042 TAAAAAATAATAATAT
1 TAAAATATAATAATAT
*
2440058 TATAATATAATAATAT
1 TAAAATATAATAATAT
* *
2440074 TAAAATAAAATAATAA
1 TAAAATATAATAATAT
2440090 TAAA
1 TAAA
2440094 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAATATAATAATAT
Found at i:2440071 original size:19 final size:19
Alignment explanation
Indices: 2440040--2440098 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
2440030 TTGGGCCTGT
*
2440040 AATAAAA-AATAATAATAT
1 AATAAAATAATAATAATAA
* * *
2440058 TATAATATAATAATATTAA
1 AATAAAATAATAATAATAA
2440077 AATAAAATAATAATAAATAA
1 AATAAAATAATAAT-AATAA
2440097 AA
1 AA
2440099 CAAATGAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
18 5 0.16
19 21 0.66
20 6 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AATAAAATAATAATAATAA
Found at i:2440529 original size:113 final size:114
Alignment explanation
Indices: 2440346--2441363 Score: 904
Period size: 113 Copynumber: 8.6 Consensus size: 114
2440336 AGAATCATGC
2440346 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
2440411 TATGAACTC-TCTCTGGAAAAGTTGATCCATC-AAGTGATGAATTCAAGCA
65 TATGAACTCGACTCTGGCAATGTTGATCCATCGAA-TGATGAATTCAAGCG
* *
2440460 AAAATTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
2440525 ATGAACTC-TCCCTGGCAATGCTGATCCATCGAATGATAAATTCAAGCG
66 ATGAACTCGACTCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
* *
2440573 AAACGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
2440638 ATGAACTCGACT-TGGCAATGTTGATCCATCGAATGATGAATTCAAGCA
66 ATGAACTCGACTCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
**
2440686 AAAAGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** ** * * * ** * * * *
2440751 ATGAACTC--CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGG
66 ATGAACTCGAC-TCTGGC--AAT--GTTGA-TCCATCGAATGATGAATTCAAGC--G
* * ** * ** ***
2440806 TAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTT-C-TCATT---AT
1 AAAAGTTGA---A-C-AA-G-T-TCTTC--TC-ATTA--TGAACTTCTTCTTCCTTC-TTCAGAT
* * * * * * * * * *
2440866 GAACTTCTTCTTCCTTCTTCAGA-T-GAGTTCT-TCTCAT-TATGAACTCGACCTGGCAATGTTG
52 G-AGTTCTTC-TCATT-ATGA-ACTCGA-CTCTGGC-AATGT-TG-A-TC--CATCG-AATGATG
* *
2440927 ATCTATCGAATGATG
105 A-AT-TC-AA-G-CG
* * * *
2440942 AATTCAATCGAA-AAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAG
1 AA--AAGTTGAACAAG-T--------TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* *
2441006 TTCTTATCATTATGAACTCGACT-TGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
55 TTCTTCTCATTATGAACTCGACTCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
2441065 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
2441130 ATGAACTCGAC-CTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACTCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
2441178 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
2441243 ATGAACTCGAC-CTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACTCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
2441291 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
2441356 ATGAACTC
66 ATGAACTC
2441364 TTCCAGAAAT
Statistics
Matches: 737, Mismatches: 105, Indels: 125
0.76 0.11 0.13
Matches are distributed among these distances:
111 1 0.00
112 1 0.00
113 549 0.74
114 7 0.01
115 1 0.00
117 4 0.01
118 15 0.02
120 7 0.01
121 6 0.01
122 3 0.00
123 4 0.01
124 2 0.00
125 4 0.01
126 2 0.00
127 1 0.00
128 10 0.01
129 8 0.01
130 10 0.01
131 15 0.02
132 12 0.02
133 35 0.05
134 8 0.01
135 13 0.02
136 10 0.01
137 3 0.00
138 6 0.01
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (114 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACTCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
Found at i:2440745 original size:40 final size:40
Alignment explanation
Indices: 2440701--2440798 Score: 187
Period size: 40 Copynumber: 2.5 Consensus size: 40
2440691 TTGAACAAAC
*
2440701 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGT
2440741 TCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGT
2440781 TCTTCTCATTATGAACTC
1 TCTTCTCATTATGAACTC
2440799 GACCTGGTAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.46
Consensus pattern (40 bp):
TCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGT
Found at i:2440773 original size:266 final size:266
Alignment explanation
Indices: 2440472--2441024 Score: 953
Period size: 266 Copynumber: 2.1 Consensus size: 266
2440462 AATTTGAACA
* * **
2440472 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCCC
1 AGTTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACC
*
2440537 TGGCAATGCTGATCCATCGAATGATAAATTCAAGCGAAACGTTGAACAAGTTCTTCTCATTATGA
66 TGGCAATGCTGATCCATCGAATGATAAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGA
*
2440602 ACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTCGACTTGGCAATGTTGATCCAT
131 ACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTCGACCTGGCAATGTTGATCCAT
2440667 CGAATGATGAATTCAAGCAAAAAGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTT
196 CGAATGATGAATTCAAGCAAAAAGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTT
*
2440732 CAGATG
261 CAAATG
2440738 AGTTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACC
1 AGTTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACC
* * *
2440803 TGGTAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGA
66 TGGCAATGCTGATCCATCGAATGATAAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGA
* *
2440868 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTGATCTAT
131 ACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTCGACCTGGCAATGTTGATCCAT
* * **
2440933 CGAATGATGAATTCAATCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTT
196 CGAATGATGAATTCAAGCAAAAAGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTT
2440998 CAAATG
261 CAAATG
*
2441004 AGTTCTTATCATTATGAACTC
1 AGTTCTTCTCATTATGAACTC
2441025 GACTTGGTAA
Statistics
Matches: 270, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
266 270 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (266 bp):
AGTTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACC
TGGCAATGCTGATCCATCGAATGATAAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGA
ACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTCGACCTGGCAATGTTGATCCAT
CGAATGATGAATTCAAGCAAAAAGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTT
CAAATG
Found at i:2440775 original size:153 final size:153
Alignment explanation
Indices: 2440585--2440911 Score: 591
Period size: 153 Copynumber: 2.1 Consensus size: 153
2440575 ACGTTGAACA
* *
2440585 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTCGACT
1 AGTTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTCGACC
2440650 TGGCAATGTTGATCCATCGAATGATGAATTCAAGCAAAAAGTTGAACAAACTCTTCTCATTATGA
66 TGGCAATGTTGATCCATCGAATGATGAATTCAAGCAAAAAGTTGAACAAACTCTTCTCATTATGA
2440715 ACTTCTTCTTCCTTCTTCAGATG
131 ACTTCTTCTTCCTTCTTCAGATG
*
2440738 AGTTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACC
1 AGTTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTCGACC
* * **
2440803 TGGTAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGA
66 TGGCAATGTTGATCCATCGAATGATGAATTCAAGCAAAAAGTTGAACAAACTCTTCTCATTATGA
2440868 ACTTCTTCTTCCTTCTTCAGATG
131 ACTTCTTCTTCCTTCTTCAGATG
2440891 AGTTCTTCTCATTATGAACTC
1 AGTTCTTCTCATTATGAACTC
2440912 GACCTGGCAA
Statistics
Matches: 167, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
153 167 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (153 bp):
AGTTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTCGACC
TGGCAATGTTGATCCATCGAATGATGAATTCAAGCAAAAAGTTGAACAAACTCTTCTCATTATGA
ACTTCTTCTTCCTTCTTCAGATG
Found at i:2441058 original size:379 final size:379
Alignment explanation
Indices: 2440359--2441137 Score: 1337
Period size: 379 Copynumber: 2.1 Consensus size: 379
2440349 AGATTGAACA
* *
2440359 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTC
1 AGTTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCACTC
*
2440424 TGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCAAAAATTTGAACAAGTTCTTCTCATTATGA
66 TGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGA
* **
2440489 ACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCCCTGGCAATGCTGATCCAT
131 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCAT
*
2440554 CGAATGATAAATTCAAGCGAAACGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTT
196 CGAATGATAAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTT
* *
2440619 CAGATGAGTTATTCTCATTATGAACTCGACTTGGCAATGTTGATCCATCGAATGATGAATTCAAG
261 CAAATGAGTTATTATCATTATGAACTCGACTTGGCAATGTTGATCCATCGAATGATGAATTCAAG
2440684 CAAAAAGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
326 CAAAAAGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
2440738 AGTTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC-
1 AGTTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC-ACT
* * *
2440802 CTGGTAATGTTGATCCATCGAA-TGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTAT
65 CTGGAAAAGTTGATCCATC-AAGTGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTAT
* *
2440866 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGTTGATCT
129 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCC
* *
2440931 ATCGAATGATGAATTCAATCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
194 ATCGAATGATAAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
* *
2440996 TTCAAATGAGTTCTTATCATTATGAACTCGACTTGGTAATGTTGATCCATCGAATGATGAATTCA
259 TTCAAATGAGTTATTATCATTATGAACTCGACTTGGCAATGTTGATCCATCGAATGATGAATTCA
* **
2441061 AGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
324 AGCAAAAAGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
2441117 AGTTCTTCTCATTATGAACTC
1 AGTTCTTCTCATTATGAACTC
2441138 GACCTGGCAA
Statistics
Matches: 377, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
379 374 0.99
380 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (379 bp):
AGTTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCACTC
TGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGA
ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCAT
CGAATGATAAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTT
CAAATGAGTTATTATCATTATGAACTCGACTTGGCAATGTTGATCCATCGAATGATGAATTCAAG
CAAAAAGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
Found at i:2441875 original size:22 final size:22
Alignment explanation
Indices: 2441796--2441873 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
2441786 GATAAAGCTT
*
2441796 TCATCTTTGAAAAGAGAATATA
1 TCATCTTTGAAAAGAGAATCTA
*
2441818 TCATCTTTTAAAAAGAGAATCTA
1 TCATC-TTTGAAAAGAGAATCTA
* *
2441841 TCATCTTTGAAGAGAAAATCTA
1 TCATCTTTGAAAAGAGAATCTA
2441863 TCATCTTTGAA
1 TCATCTTTGAA
2441874 GAATGTAGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
22 30 0.60
23 20 0.40
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:2444544 original size:114 final size:114
Alignment explanation
Indices: 2444344--2444566 Score: 367
Period size: 114 Copynumber: 2.0 Consensus size: 114
2444334 GATCATGTTC
* * * *
2444344 ATCTTTCAAATCTAATGATTGGTTTTGAGGTTCTTACCGAACTAGATCAGATAATTCAAAGAACA
1 ATCTTTCAAATCTAATGATTGGTTTTGAGGTTCATACCAAACTAGATCAGATAACTCAAAGAAAA
*
2444409 CTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGAAAATTT
66 CTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTACGAGAAAATTT
*
2444458 ATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAA-TCAGATCAGATAACTCAAAGAAA
1 ATCTTTCAAATCTAATGATTGGTTTTGAGGTTCATACCAAACT-AGATCAGATAACTCAAAGAAA
*
2444522 ACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTACGAGAA
65 ACTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTACGAGAA
2444567 CGTGGAACTT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
113 1 0.01
114 100 0.99
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (114 bp):
ATCTTTCAAATCTAATGATTGGTTTTGAGGTTCATACCAAACTAGATCAGATAACTCAAAGAAAA
CTTCCAAAAGATGCTATTGGGTCTCCTTATTTCTACTACGAGAAAATTT
Found at i:2446745 original size:7 final size:7
Alignment explanation
Indices: 2446733--2446848 Score: 81
Period size: 7 Copynumber: 15.3 Consensus size: 7
2446723 ATTTCTTCCC
2446733 TTTTTCT
1 TTTTTCT
2446740 TTTTTCCT
1 TTTTT-CT
*
2446748 TTTCTCAT
1 TTTTTC-T
2446756 TTTTTCT
1 TTTTTCT
2446763 TTTTCATCT
1 TTTT--TCT
2446772 TTTTTCT
1 TTTTTCT
2446779 TTTTTCCT
1 TTTTT-CT
*
2446787 TTTTCCT
1 TTTTTCT
**
2446794 CATTT-T
1 TTTTTCT
**
2446800 TTCATCT
1 TTTTTCT
2446807 TTTTTCT
1 TTTTTCT
2446814 TTTTTCTT
1 TTTTTC-T
2446822 TCTTTTCT
1 T-TTTTCT
2446830 AGATTTTTCT
1 ---TTTTTCT
2446840 TTTTTCT
1 TTTTTCT
2446847 TT
1 TT
2446849 CTTTGCTGGA
Statistics
Matches: 86, Mismatches: 12, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
6 2 0.02
7 44 0.51
8 21 0.24
9 12 0.14
10 6 0.07
11 1 0.01
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.75
Consensus pattern (7 bp):
TTTTTCT
Found at i:2446749 original size:8 final size:8
Alignment explanation
Indices: 2446728--2446819 Score: 59
Period size: 8 Copynumber: 11.4 Consensus size: 8
2446718 ATTCAATTTC
*
2446728 TTCCCTTT
1 TTCCTTTT
2446736 TT-CTTTT
1 TTCCTTTT
2446743 TTCCTTTT
1 TTCCTTTT
* *
2446751 CTCATTTT
1 TTCCTTTT
2446759 TT-C-TTT
1 TTCCTTTT
2446765 TTCATCTTTT
1 TTC--CTTTT
2446775 TT-CTTTT
1 TTCCTTTT
2446782 TTCCTTTT
1 TTCCTTTT
*
2446790 TCCTCATTTT
1 T--TCCTTTT
2446800 TTCATCTTTT
1 TTC--CTTTT
2446810 TT-CTTTT
1 TTCCTTTT
2446817 TTC
1 TTC
2446820 TTTCTTTTCT
Statistics
Matches: 66, Mismatches: 7, Indels: 22
0.69 0.07 0.23
Matches are distributed among these distances:
6 5 0.08
7 20 0.30
8 22 0.33
9 1 0.02
10 18 0.27
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (8 bp):
TTCCTTTT
Found at i:2446760 original size:16 final size:15
Alignment explanation
Indices: 2446731--2446782 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
2446721 CAATTTCTTC
2446731 CCTTTTTC-TTTTTT
1 CCTTTTTCATTTTTT
2446745 CCTTTTCTCATTTTTT
1 CCTTTT-TCATTTTTT
2446761 -CTTTTTCATCTTTTT
1 CCTTTTTCAT-TTTTT
*
2446776 TCTTTTT
1 CCTTTTT
2446783 TCCTTTTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.29
15 12 0.35
16 12 0.35
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (15 bp):
CCTTTTTCATTTTTT
Found at i:2446827 original size:26 final size:24
Alignment explanation
Indices: 2446733--2446852 Score: 95
Period size: 26 Copynumber: 4.8 Consensus size: 24
2446723 ATTTCTTCCC
2446733 TTTTTCTTTTTTC--CTTTTCTCAT
1 TTTTTCTTTTTTCTTCTTTTCTC-T
* *
2446756 TTTTTC-TTTTTCATCTTTTTTCT
1 TTTTTCTTTTTTCTTCTTTTCTCT
2446779 TTTTTCCTTTTTCCTCATT-TTTTCATCT
1 TTTTT-CTTTTT--TC-TTCTTTTC-TCT
**
2446807 TTTTTCTTTTTTCTTTCTTTTCTAGA
1 TTTTTCTTTTTTC-TTCTTTTCT-CT
2446833 TTTTTCTTTTTTCTTTCTTT
1 TTTTTCTTTTTTC-TTCTTT
2446853 GCTGGATGAG
Statistics
Matches: 81, Mismatches: 6, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
22 6 0.07
23 12 0.15
24 8 0.10
25 9 0.11
26 25 0.31
27 12 0.15
28 9 0.11
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.75
Consensus pattern (24 bp):
TTTTTCTTTTTTCTTCTTTTCTCT
Found at i:2452663 original size:28 final size:28
Alignment explanation
Indices: 2452631--2452688 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
2452621 GACTTCTAGG
2452631 TGTTTTAAGACAGTCCTTTTCTTAATAT
1 TGTTTTAAGACAGTCCTTTTCTTAATAT
2452659 TGTTTTAAGACAGTCCTTTTCTTAATAT
1 TGTTTTAAGACAGTCCTTTTCTTAATAT
2452687 TG
1 TG
2452689 AAAAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.50
Consensus pattern (28 bp):
TGTTTTAAGACAGTCCTTTTCTTAATAT
Found at i:2452825 original size:3 final size:3
Alignment explanation
Indices: 2452810--2452868 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
2452800 TATTTATATA
* * **
2452810 AAT AAT AAA AAT AAT AAT AAT GA- AAT AAT AATT AA- AGC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
2452854 AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT A
2452869 TTGCAAATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
2 4 0.09
3 38 0.84
4 3 0.07
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:2452877 original size:26 final size:28
Alignment explanation
Indices: 2452818--2452879 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
2452808 TAAATAATAA
*
2452818 AAATAATAATAATGAAATAATAATTAAAGC
1 AAATAATAATAATAAAATAATAATT--AGC
2452848 -AATAATAATAATAAAATAAT-ATT-GC
1 AAATAATAATAATAAAATAATAATTAGC
2452873 AAATAAT
1 AAATAAT
2452880 GATTAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 2 0.07
26 6 0.20
28 3 0.10
29 19 0.63
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (28 bp):
AAATAATAATAATAAAATAATAATTAGC
Found at i:2452945 original size:29 final size:29
Alignment explanation
Indices: 2452896--2452957 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
2452886 AATAAAAGGA
* *
2452896 ATTAAAAATATAGTAT-TAAAATGTAAAAT
1 ATTAAAAATATAATATCAAAAATG-AAAAT
2452925 ATTAAAAATA-AATAGTCAAAAATGAAAAT
1 ATTAAAAATATAATA-TCAAAAATGAAAAT
2452954 -TTAA
1 ATTAA
2452958 TGATTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
28 7 0.24
29 16 0.55
30 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (29 bp):
ATTAAAAATATAATATCAAAAATGAAAAT
Found at i:2453754 original size:27 final size:28
Alignment explanation
Indices: 2453723--2453784 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
2453713 CTTCGTTTTT
2453723 CTTTTTTTT-TTCT-TGCTCTCTG-CCC
1 CTTTTTTTTCTTCTGTGCTCTCTGTCCC
*
2453748 CTTTTTTTTCTTCTGTTCTCTCTGTCCC
1 CTTTTTTTTCTTCTGTGCTCTCTGTCCC
*
2453776 CTTTGTTTT
1 CTTTTTTTT
2453785 GCAGGATCCG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 9 0.28
26 4 0.12
27 8 0.25
28 11 0.34
ACGTcount: A:0.00, C:0.29, G:0.08, T:0.63
Consensus pattern (28 bp):
CTTTTTTTTCTTCTGTGCTCTCTGTCCC
Found at i:2454302 original size:16 final size:16
Alignment explanation
Indices: 2454275--2454326 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
2454265 GGGCCTGTAA
*
2454275 TAAAAAATAATAATAT
1 TAAAATATAATAATAT
*
2454291 TATAATATAATAATAT
1 TAAAATATAATAATAT
* *
2454307 TAAAATAAAATAATAA
1 TAAAATATAATAATAT
2454323 TAAA
1 TAAA
2454327 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAATATAATAATAT
Found at i:2454304 original size:19 final size:19
Alignment explanation
Indices: 2454273--2454331 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
2454263 TTGGGCCTGT
*
2454273 AATAAAA-AATAATAATAT
1 AATAAAATAATAATAATAA
* * *
2454291 TATAATATAATAATATTAA
1 AATAAAATAATAATAATAA
2454310 AATAAAATAATAATAAATAA
1 AATAAAATAATAAT-AATAA
2454330 AA
1 AA
2454332 CAAATGAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
18 5 0.16
19 21 0.66
20 6 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AATAAAATAATAATAATAA
Found at i:2455852 original size:23 final size:22
Alignment explanation
Indices: 2455826--2455885 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
2455816 ATTAAGTAAA
2455826 ATAACAAATTAGGTAGCGCTTAT
1 ATAACAAA-TAGGTAGCGCTTAT
**
2455849 ATAATGTAATAGGTAGCGCTTAT
1 ATAA-CAAATAGGTAGCGCTTAT
*
2455872 ATAATAAAATAGGT
1 ATAA-CAAATAGGT
2455886 TAATTACTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 30 0.94
24 2 0.06
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (22 bp):
ATAACAAATAGGTAGCGCTTAT
Found at i:2455939 original size:23 final size:23
Alignment explanation
Indices: 2455913--2455972 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
2455903 ATCAAGCACA
* * *
2455913 ATAACATATTAGGTAGCGTTTAT
1 ATAACATAATAGGTAACGCTTAT
**
2455936 ATAATGTAATAGGTAACGCTTAT
1 ATAACATAATAGGTAACGCTTAT
* *
2455959 ATAATAAAATAGGT
1 ATAACATAATAGGT
2455973 TAATTACTAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAACGCTTAT
Found at i:2455959 original size:87 final size:87
Alignment explanation
Indices: 2455825--2456047 Score: 365
Period size: 87 Copynumber: 2.6 Consensus size: 87
2455815 TATTAAGTAA
*
2455825 AATAACAAATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAAT
1 AATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAAT
2455890 TACTAAAAACATTATCAAGCAC
66 TACTAAAAACATTATCAAGCAC
* *
2455912 AATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAACGCTTATATAATAAAATAGGTTAAT
1 AATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAAT
* * *
2455977 TACTAGAAATATTATCAAGTAC
66 TACTAAAAACATTATCAAGCAC
** *
2455999 AATAACATATTAAATAGCGCTTATATAATGTAATATGTAGCGCTTATAT
1 AATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATAT
2456048 TGACATATTC
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 125 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (87 bp):
AATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAAT
TACTAAAAACATTATCAAGCAC
Found at i:2456700 original size:201 final size:198
Alignment explanation
Indices: 2456049--2456730 Score: 964
Period size: 199 Copynumber: 3.4 Consensus size: 198
2456039 CGCTTATATT
* * *
2456049 GACATATTCTATCATAAAACCAGTATATTTATATCGGTAACATTGTAAATTTACATATTACATTA
1 GACATATTCTCTCATAAAACCGGTATATTTATATCAGT-ACATTGTAAATTTACATATTACATTA
*
2456114 TAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTT--TAAATGTATCGACACTTTATGCGT
65 TAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGT
**
2456177 GCACCTCGTCGGGCATTCATTCTGGAAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACAT
129 GCACCTCGTTTGGCATTCATTCTGG-AAAAAAGTATCGACACAAACTTAAAATGTGTCGATACAT
2456242 TATGTA
193 TATGTA
* ** * *
2456248 GACCA-ATTTTCTCATAAAATTGGTTTATTTATATCCAGTACATTGTAAATTTACCTATTACATT
1 GA-CATATTCTCTCATAAAACCGGTATATTTATAT-CAGTACATTGTAAATTTACATATTACATT
* * *
2456312 GTAATTATCGGTTTGGAT-TTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGT
64 ATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGT
2456376 GCACCTCG-TTGGACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACAT
129 GCACCTCGTTTGG-CATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACAT
2456440 TATGTA
193 TATGTA
* * * * *
2456446 GACATATTTTCTCATAAAACCGATATATTTCTACCGAGTACATTGTAAATTTACCTATTACATTA
1 GACATATTCTCTCATAAAACCGGTATATTTATATC-AGTACATTGTAAATTTACATATTACATTA
* *
2456511 TAATTATCGGTTTAGATGTTTTTGGGATCGATACTTTTAATAAATGTATTGACACTTTATGCGTG
65 TAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTG
*** * *
2456576 CACCTCGTTTGGCATTCATTCTGGACAAAAATGTATCGACAC-TTTTTAAATTTGTGTTGATACA
130 CACCTCGTTTGGCATTCATTCTGGA-AAAAA-GTATCGACACAAACTTAAA-ATGTGTCGATACA
2456640 TTATGTA
192 TTATGTA
*
2456647 GACATATTCTCTCATAAAACCGGTATATTTATA-CAAGTTACATTGTAAATTTACATATTAGATT
1 GACATATTCTCTCATAAAACCGGTATATTTATATC-AG-TACATTGTAAATTTACATATTACATT
2456711 ATAATTATCGGTTTCGATGT
64 ATAATTATCGGTTTCGATGT
2456731 AACATATGTG
Statistics
Matches: 434, Mismatches: 36, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
197 6 0.01
198 132 0.30
199 173 0.40
200 22 0.05
201 101 0.23
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (198 bp):
GACATATTCTCTCATAAAACCGGTATATTTATATCAGTACATTGTAAATTTACATATTACATTAT
AATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGC
ACCTCGTTTGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTAT
GTA
Found at i:2456872 original size:31 final size:30
Alignment explanation
Indices: 2456831--2456924 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
2456821 TTATAATAAA
*
2456831 TAAT-AAATATAATTTATAATAATTTTATT-T
1 TAATAAAATATAA-TAATAATAATTTT-TTAT
*
2456861 TAATAAAATATAATAATCATAATTTTTTAT
1 TAATAAAATATAATAATAATAATTTTTTAT
* * *
2456891 TTATAAAAT-T-ATAGAT-ATAATATTTTAA
1 TAATAAAATATAATA-ATAATAATTTTTTAT
2456919 TAATAA
1 TAATAA
2456925 TATTGACATA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
28 18 0.33
29 5 0.09
30 24 0.44
31 8 0.15
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
TAATAAAATATAATAATAATAATTTTTTAT
Found at i:2456924 original size:14 final size:14
Alignment explanation
Indices: 2456842--2456928 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
2456832 AATAAATATA
**
2456842 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
2456857 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
2456870 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * * *
2456884 TTTTTATTTATAAA
1 ATTTTAATAATAAT
*
2456898 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
2456912 ATTTTAATAATAAT
1 ATTTTAATAATAAT
2456926 ATT
1 ATT
2456929 GACATAAATA
Statistics
Matches: 53, Mismatches: 16, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
13 10 0.19
14 38 0.72
15 5 0.09
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:2456924 original size:28 final size:28
Alignment explanation
Indices: 2456856--2456924 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
2456846 ATAATAATTT
*
2456856 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATAATAATCATAA
* * * *
2456883 TTTTTTATTTATAAAATTATAGAT-ATAA
1 TATTTTAATAATAAAATAATA-ATCATAA
2456911 TATTTTAATAATAA
1 TATTTTAATAATAA
2456925 TATTGACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTTAATAATAAAATAATAATCATAA
Found at i:2457011 original size:24 final size:24
Alignment explanation
Indices: 2456960--2457011 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
2456950 ATTATTCTAA
2456960 TATT-TTAAAAATAATATTATTAT
1 TATTGTTAAAAATAATATTATTAT
*
2456983 T-TTGTTAATAAATAATGTTATT-T
1 TATTGTTAA-AAATAATATTATTAT
2457006 TATTGT
1 TATTGT
2457012 ATTTGATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.28
24 16 0.64
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (24 bp):
TATTGTTAAAAATAATATTATTAT
Found at i:2457100 original size:2 final size:2
Alignment explanation
Indices: 2457093--2457139 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2457083 ATATTGTAAT
2457093 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2457135 TA TA T
1 TA TA T
2457140 TTGAAAGGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2457660 original size:31 final size:30
Alignment explanation
Indices: 2457613--2457705 Score: 86
Period size: 30 Copynumber: 3.1 Consensus size: 30
2457603 TATATTATTC
* *
2457613 TTATTATAA-AAAATATAATTTATAATAATT
1 TTATTTTAATAAAATATAA-TAATAATAATT
*
2457643 TTATTTTAATAAAATATAATAATCATAATT
1 TTATTTTAATAAAATATAATAATAATAATT
*
2457673 TT-TTATTTATAAAATTATAGAT-ATAAT-ATT
1 TTATT-TTAATAAAA-TATA-ATAATAATAATT
2457703 TTA
1 TTA
2457706 ATAATAATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
29 2 0.04
30 32 0.60
31 17 0.32
32 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
TTATTTTAATAAAATATAATAATAATAATT
Found at i:2457671 original size:30 final size:31
Alignment explanation
Indices: 2457589--2457687 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 31
2457579 CTCTCATTAT
*
2457589 AATATAATTAATGATATATTATTCTTATTATAA-AA
1 AATATAATTAAT-A-ATA--ATT-TTATTTTAATAA
*
2457624 AATATAATTTATAATAATTTTATTTTAATAA
1 AATATAATTAATAATAATTTTATTTTAATAA
* *
2457655 AATATAA-TAATCATAATTTT-TTATTTATAA
1 AATATAATTAATAATAATTTTATT-TTAATAA
2457685 AAT
1 AAT
2457688 TATAGATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
29 2 0.04
30 28 0.49
31 12 0.21
33 3 0.05
34 1 0.02
35 11 0.19
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (31 bp):
AATATAATTAATAATAATTTTATTTTAATAA
Found at i:2457671 original size:33 final size:32
Alignment explanation
Indices: 2457589--2457705 Score: 88
Period size: 31 Copynumber: 3.7 Consensus size: 32
2457579 CTCTCATTAT
* *
2457589 AATATAATTAATGATATATTATTCTTATTATAA-AA
1 AATATAA-TAATCATA-A-TATT-TTATTTTAATAA
*
2457624 AATATAAT--TTATAATAATTTTATTTTAATAA
1 AATATAATAATCATAAT-ATTTTATTTTAATAA
*
2457655 AATATAATAATCATAATTTTTTA-TTT-ATAA
1 AATATAATAATCATAATATTTTATTTTAATAA
2457685 AAT-T-ATAGAT-ATAATATTTTA
1 AATATAATA-ATCATAATATTTTA
2457706 ATAATAATAT
Statistics
Matches: 72, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
28 13 0.18
29 3 0.04
30 16 0.22
31 17 0.24
32 9 0.12
33 6 0.08
34 1 0.01
35 7 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (32 bp):
AATATAATAATCATAATATTTTATTTTAATAA
Found at i:2457712 original size:14 final size:14
Alignment explanation
Indices: 2457630--2457731 Score: 57
Period size: 14 Copynumber: 7.2 Consensus size: 14
2457620 AAAAAATATA
**
2457630 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
2457645 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
2457658 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * * *
2457672 TTTTTATTTATAAA
1 ATTTTAATAATAAT
*
2457686 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
2457700 ATTTTAATAATAAT
1 ATTTTAATAATAAT
2457714 A-TTTACATAAATAAT
1 ATTTTA-AT-AATAAT
2457729 ATT
1 ATT
2457732 AAATAAATTA
Statistics
Matches: 65, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
13 14 0.22
14 38 0.58
15 12 0.18
16 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:2457712 original size:28 final size:28
Alignment explanation
Indices: 2457644--2457712 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
2457634 ATAATAATTT
*
2457644 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATAATAATCATAA
* * * *
2457671 TTTTTTATTTATAAAATTATAGAT-ATAA
1 TATTTTAATAATAAAATAATA-ATCATAA
2457699 TATTTTAATAATAA
1 TATTTTAATAATAA
2457713 TATTTACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTTAATAATAAAATAATAATCATAA
Found at i:2457737 original size:14 final size:15
Alignment explanation
Indices: 2457695--2457739 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
2457685 AATTATAGAT
*
2457695 ATAATATTTTAAT-A
1 ATAATATTTAAATAA
*
2457709 ATAATATTTACATAA
1 ATAATATTTAAATAA
2457724 ATAATA-TTAAATAA
1 ATAATATTTAAATAA
2457738 AT
1 AT
2457740 TATTCTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 20 0.74
15 7 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATATTTAAATAA
Found at i:2457799 original size:24 final size:24
Alignment explanation
Indices: 2457748--2457799 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
2457738 ATTATTCTAA
2457748 TATT-TTAAAAATAATATTATTAT
1 TATTGTTAAAAATAATATTATTAT
* *
2457771 T-TTGTTAATAAATAATGTTGTT-T
1 TATTGTTAA-AAATAATATTATTAT
2457794 TATTGT
1 TATTGT
2457800 ATTTGATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.29
24 15 0.62
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (24 bp):
TATTGTTAAAAATAATATTATTAT
Found at i:2458081 original size:21 final size:23
Alignment explanation
Indices: 2458054--2458103 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
2458044 ACATATTTTA
2458054 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTATTACG
2458077 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTATTACG
2458100 TTAT
1 TTAT
2458104 TGTGCTTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACCTATTACG
Found at i:2458166 original size:23 final size:23
Alignment explanation
Indices: 2458131--2458181 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
2458121 CTAGTAATTA
**
2458131 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
2458154 ACCTATTACATTATATAAGCGGT
1 ACCTATTACATTATATAAGCGCT
2458177 ACCTA
1 ACCTA
2458182 ATATGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:2458190 original size:87 final size:87
Alignment explanation
Indices: 2458038--2458264 Score: 373
Period size: 87 Copynumber: 2.6 Consensus size: 87
2458028 ACAAATTAAA
* * *
2458038 TAATTAACATATTTTATTATATAAGCGCTACCTATTACGTTATATAAGCGCTACCTATTACGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATACGTTA
2458103 TTGTGCTTGATAATGTTTCTAG
66 TTGTGCTTGATAATGTTTCTAG
* *
2458125 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATACGTTA
*
2458190 TTGTGTTTGATAATGTTTCTAG
66 TTGTGCTTGATAATGTTTCTAG
* * *
2458212 TAATTTACCTATTTTATTATATAAGCGATACATATTACATTATATAAGCGCTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTA
2458265 TCTATTACAT
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 130 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (87 bp):
TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATACGTTA
TTGTGCTTGATAATGTTTCTAG
Found at i:2458260 original size:110 final size:110
Alignment explanation
Indices: 2458140--2458389 Score: 410
Period size: 110 Copynumber: 2.3 Consensus size: 110
2458130 AACCTATTTT
* * *
2458140 ATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGTTTGATAATG
1 ATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATG
*
2458205 TTTCTAGTAATTTACCTATTTTATTATATAAGCGATACATATTAC
66 TTTCTAGTAATTAACCTATTTTATTATATAAGCGATACATATTAC
* *
2458250 ATTATATAAGCGCTATCTATTACATTATATAAGTGCTACCTAATATGTTATTATGCTTGATAATG
1 ATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATG
* * *
2458315 TTTCTAGTAATTAACCTATTTTATTATATAAGCGGTACCTGTTAC
66 TTTCTAGTAATTAACCTATTTTATTATATAAGCGATACATATTAC
*
2458360 ATTATATAAGCGCTACCTATTACATCATAT
1 ATTATATAAGCGCTACCTATTACATTATAT
2458390 TTTTACCTGT
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 129 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (110 bp):
ATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATG
TTTCTAGTAATTAACCTATTTTATTATATAAGCGATACATATTAC
Found at i:2458287 original size:23 final size:23
Alignment explanation
Indices: 2458227--2458288 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2458217 TACCTATTTT
*
2458227 ATTATATAAGCGATACATATTAC
1 ATTATATAAGCGCTACATATTAC
2458250 ATTATATAAGCGCTATC-TATTAC
1 ATTATATAAGCGCTA-CATATTAC
*
2458273 ATTATATAAGTGCTAC
1 ATTATATAAGCGCTAC
2458289 CTAATATGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 1 0.03
23 34 0.94
24 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (23 bp):
ATTATATAAGCGCTACATATTAC
Found at i:2458363 original size:23 final size:23
Alignment explanation
Indices: 2458328--2458389 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
2458318 CTAGTAATTA
** *
2458328 ACCTATTTTATTATATAAGCGGT
1 ACCTATTACATTATATAAGCGCT
*
2458351 ACCTGTTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
2458374 ACCTATTACATCATAT
1 ACCTATTACATTATAT
2458390 TTTTACCTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:2459660 original size:21 final size:21
Alignment explanation
Indices: 2459631--2459691 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
2459621 CACAGTTTCC
*
2459631 GAATTCGCAACACAAAATTTG
1 GAATTCGCAACACAAAATATG
*
2459652 GATTTCGCAACACAAAATATG
1 GAATTCGCAACACAAAATATG
2459673 GAATTCGCAACACAGAAAT
1 GAATTCGCAACACA-AAAT
2459692 CGAATTTGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
21 32 0.89
22 4 0.11
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (21 bp):
GAATTCGCAACACAAAATATG
Found at i:2459702 original size:20 final size:20
Alignment explanation
Indices: 2459571--2459703 Score: 85
Period size: 20 Copynumber: 6.6 Consensus size: 20
2459561 AAATAACCAA
* **
2459571 CGAATTCGCAACTCAG-TTT
1 CGAATTCGCAACACAGAAAT
*
2459590 CGAATTCGCAACAC-GAACT
1 CGAATTCGCAACACAGAAAT
* **
2459609 CCAATTTCGCAACACAG-TTT
1 CGAA-TTCGCAACACAGAAAT
2459629 CCGAATTCGCAACACA-AAATTT
1 -CGAATTCGCAACACAGAAA--T
* * *
2459651 GGATTTCGCAACACAAAATAT
1 CGAATTCGCAACACAGAA-AT
*
2459672 GGAATTCGCAACACAGAAAT
1 CGAATTCGCAACACAGAAAT
*
2459692 CGAATTTGCAAC
1 CGAATTCGCAAC
2459704 TCGAATTTGA
Statistics
Matches: 90, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
18 1 0.01
19 17 0.19
20 34 0.38
21 34 0.38
22 3 0.03
23 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (20 bp):
CGAATTCGCAACACAGAAAT
Found at i:2459745 original size:20 final size:20
Alignment explanation
Indices: 2459594--2459838 Score: 113
Period size: 20 Copynumber: 12.1 Consensus size: 20
2459584 CAGTTTCGAA
*
2459594 TTCGCAACACGAA-CTCCAAT
1 TTCGCAACACGAATTTCC-AT
* *
2459614 TTCGCAACAC-AGTTTCCGAA
1 TTCGCAACACGAATTTCC-AT
* **
2459634 TTCGCAACACAAAATTTGGAT
1 TTCGCAACAC-GAATTTCCAT
* * ** *
2459655 TTCGCAACACAAAATATGGAA
1 TTCGCAACAC-GAATTTCCAT
* *
2459676 TTCGCAACACAGAA-ATCGAAT
1 TTCGCAACAC-GAATTTC-CAT
* *
2459697 TT-GCAACTCGAATTTGACAAT
1 TTCGCAACACGAATTT--CCAT
*
2459718 TTCACAACACGAATTTCCAT
1 TTCGCAACACGAATTTCCAT
*
2459738 TTCGCAACACGAATTTCCTT
1 TTCGCAACACGAATTTCCAT
* * ** *
2459758 TTCGCAACTCGATTTTTAAA
1 TTCGCAACACGAATTTCCAT
* * *
2459778 TTCGCAACACGAGTTTCTAA
1 TTCGCAACACGAATTTCCAT
* * * *
2459798 TTCGTAACGCGAGTTTCAAT
1 TTCGCAACACGAATTTCCAT
*
2459818 TTCGCAACAGGAATTT-CAT
1 TTCGCAACACGAATTTCCAT
2459837 TT
1 TT
2459839 TCGTAACTCG
Statistics
Matches: 177, Mismatches: 40, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
19 8 0.05
20 112 0.63
21 41 0.23
22 16 0.09
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (20 bp):
TTCGCAACACGAATTTCCAT
Found at i:2459787 original size:40 final size:40
Alignment explanation
Indices: 2459738--2459865 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 40
2459728 GAATTTCCAT
*
2459738 TTCGCAACACGAATTTCCTTTTCGCAACTCGATTTTTAAA
1 TTCGCAACACGAATTTCCTTTTCGTAACTCGATTTTTAAA
* * * * * *
2459778 TTCGCAACACGAGTTT-CTAATTCGTAACGCGAGTTTCAAT
1 TTCGCAACACGAATTTCCT-TTTCGTAACTCGATTTTTAAA
* * **
2459818 TTCGCAACAGGAATTTCATTTTCGTAACTCGATTTTTGTA
1 TTCGCAACACGAATTTCCTTTTCGTAACTCGATTTTTAAA
2459858 TTCGCAAC
1 TTCGCAAC
2459866 GCAAATTTTA
Statistics
Matches: 69, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
39 2 0.03
40 66 0.96
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (40 bp):
TTCGCAACACGAATTTCCTTTTCGTAACTCGATTTTTAAA
Found at i:2459821 original size:60 final size:62
Alignment explanation
Indices: 2459674--2459825 Score: 150
Period size: 60 Copynumber: 2.5 Consensus size: 62
2459664 CAAAATATGG
*
2459674 AATTCGCAACACAGAA-ATCGAATTT-GCAACTCGAATTTGACAATTTCACAACACGAATTTCC
1 AATTCGCAACAC-GAATTTC-AATTTCGCAACTCGAATTTGACAATTTCACAACACGAATTTCC
* ** * * * * *
2459736 ATTTCGCAACACGAATTTCCTTTTCGCAACTCGATTTTTA-AA-TTCGCAACACGAGTTTCT
1 AATTCGCAACACGAATTTCAATTTCGCAACTCGAATTTGACAATTTCACAACACGAATTTCC
* * *
2459796 AATTCGTAACGCGAGTTTCAATTTCGCAAC
1 AATTCGCAACACGAATTTCAATTTCGCAAC
2459826 AGGAATTTCA
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
60 39 0.53
61 8 0.11
62 26 0.36
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (62 bp):
AATTCGCAACACGAATTTCAATTTCGCAACTCGAATTTGACAATTTCACAACACGAATTTCC
Found at i:2459840 original size:20 final size:20
Alignment explanation
Indices: 2459717--2459887 Score: 94
Period size: 20 Copynumber: 8.6 Consensus size: 20
2459707 AATTTGACAA
*
2459717 TTTCACAACACGAATTTCCA-
1 TTTCGCAACACGAATTT-CAT
*
2459737 TTTCGCAACACGAATTTCCT
1 TTTCGCAACACGAATTTCAT
* * * *
2459757 TTTCGCAACTCGATTTTTAA
1 TTTCGCAACACGAATTTCAT
* *
2459777 ATTCGCAACACGAGTTTC-T
1 TTTCGCAACACGAATTTCAT
* * * * *
2459796 AATTCGTAACGCGAGTTTCAA
1 -TTTCGCAACACGAATTTCAT
*
2459817 TTTCGCAACAGGAATTTCAT
1 TTTCGCAACACGAATTTCAT
* * * **
2459837 TTTCGTAACTCGATTTTTGT
1 TTTCGCAACACGAATTTCAT
* * * * *
2459857 ATTCGCAACGCAAATTTTAA
1 TTTCGCAACACGAATTTCAT
2459877 TTTCGCAACAC
1 TTTCGCAACAC
2459888 AGCTTTATCG
Statistics
Matches: 112, Mismatches: 36, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
19 1 0.01
20 111 0.99
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (20 bp):
TTTCGCAACACGAATTTCAT
Found at i:2460463 original size:12 final size:12
Alignment explanation
Indices: 2460442--2460475 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2460432 ACCACATTTC
*
2460442 CAATACCAAACA
1 CAATATCAAACA
2460454 CAATATCAAACA
1 CAATATCAAACA
*
2460466 CAATCTCAAA
1 CAATATCAAA
2460476 ATCCACAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:2460787 original size:3 final size:3
Alignment explanation
Indices: 2460731--2460767 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
2460721 TAACCCTGAG
2460731 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
2460768 TCCCTGAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:2464298 original size:3 final size:3
Alignment explanation
Indices: 2464273--2464338 Score: 87
Period size: 3 Copynumber: 21.0 Consensus size: 3
2464263 TTGGGTTTTG
*
2464273 TAA TAT TAA TAAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
2464320 TTA TAA TAAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA
2464339 AAATGGGTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
3 47 0.84
4 9 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2464707 original size:123 final size:122
Alignment explanation
Indices: 2464548--2465235 Score: 708
Period size: 113 Copynumber: 5.7 Consensus size: 122
2464538 GACCTATTTT
* * * * * *
2464548 CTTCTGTGATAGAGTCATTCAAAATGTTAAATAAGCTCTTCTCATTATGAACTTCTTCTTTC-TC
1 CTTCTGTGATAGAGTGA-GCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
* * ** *
2464612 TTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAAGGTTTATGCTAATCTATCTG
65 -TTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAAAGTTGATGCCGATCTATCTC
* * * * * *
2464671 CTTTTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCC-TC
1 CTTCTGTGATAGAGTGA-GCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
* ** *
2464735 TTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGGTGCCGATCTATCTC
65 TTCAGATGAGTTCTTCTCATTATGAACACT-TCTGGAAAAGTTGATGCCGATCTATCTC
* *
2464794 CTTCTGTGATAGCGTCGAGCAAAAGATTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
1 CTTCTGTGATAGAGT-GAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
*
2464859 TTCAGATGAGTTCTTCTCATTATGAACACTTCTGGCAAATGTTGAT-CC-ATC-A----
65 TTCAGATGAGTTCTTCTCATTATGAACACTTCTGG-AAAAGTTGATGCCGATCTATCTC
* * * * *
2464911 ----AGAGAT-GAATTCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
1 CTTCTGTGATAG-AGT-GAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
**
2464971 CTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCCGATCTATCTC
64 CTTCAGATGAGTTCTTCTCATTATGAACACT-TCTGGAAAAGTTGATGCCGATCTATCTC
* * *
2465031 CTTCTGTGATAGCGTCGAGCAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTATTCCTTC
1 CTTCTGTGATAGAGT-GAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
2465096 TTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAAA--TG-T-----T-TA--TC
65 TTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAAAGTTGATGCCGATCTATCTC
* * * * * *
2465143 CATCAAGAGAT-GAATTCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
1 CTTC-TGTGATAG-AGT-GAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
*
2465207 TCTTCATATGAGTTCTTCTCATTATGAAC
63 TCTTCAGATGAGTTCTTCTCATTATGAAC
2465236 TTCATCTAGC
Statistics
Matches: 484, Mismatches: 61, Indels: 50
0.81 0.10 0.08
Matches are distributed among these distances:
112 7 0.01
113 166 0.34
114 9 0.02
115 4 0.01
116 1 0.00
120 1 0.00
121 3 0.01
122 30 0.06
123 145 0.30
124 117 0.24
125 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (122 bp):
CTTCTGTGATAGAGTGAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCT
TCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAAAGTTGATGCCGATCTATCTC
Found at i:2465049 original size:237 final size:235
Alignment explanation
Indices: 2464689--2465237 Score: 974
Period size: 237 Copynumber: 2.3 Consensus size: 235
2464679 ATAGAATTAT
* * * *
2464689 GCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
2464753 ATTATGAACTTTCTCTGGAAAAGTTGGTGCCGATCTATCTCCTTCTGTGATAGCGTCGAGCAAAA
66 ATTATGAACTTTCTCTGGAAAAGTTGATGCCGATCTATCTCCTTCTGTGATAGCGTCGAGCAAAA
2464818 GATTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
131 G-TTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
2464883 AACACTTCTGGCAAATGTTGATCCATCAAGAGATGAATTCGA
195 AACACTTCTGG-AAATGTTGATCCATCAAGAGATGAATTCGA
2464925 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
2464990 ATTATGAACTTTCTCTGGAAAAGTTGATGCCGATCTATCTCCTTCTGTGATAGCGTCGAGCAAAA
66 ATTATGAACTTTCTCTGGAAAAGTTGATGCCGATCTATCTCCTTCTGTGATAGCGTCGAGCAAAA
* *
2465055 GGTTAAACAAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATG
131 -GTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
*
2465120 AACACTTCTGGAAAATGTTTATCCATCAAGAGATGAATTCGA
195 AACACTTCTGG-AAATGTTGATCCATCAAGAGATGAATTCGA
*
2465162 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
2465227 ATTATGAACTT
66 ATTATGAACTT
2465238 CATCTAGCAA
Statistics
Matches: 301, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
236 41 0.14
237 259 0.86
238 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (235 bp):
GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGTTGATGCCGATCTATCTCCTTCTGTGATAGCGTCGAGCAAAA
GTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACACTTCTGGAAATGTTGATCCATCAAGAGATGAATTCGA
Found at i:2465216 original size:24 final size:23
Alignment explanation
Indices: 2465181--2465225 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
2465171 TGAACAAGTT
2465181 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
2465205 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
2465226 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:2465257 original size:113 final size:113
Alignment explanation
Indices: 2465045--2465258 Score: 313
Period size: 113 Copynumber: 1.9 Consensus size: 113
2465035 TGTGATAGCG
*
2465045 TCGAGCAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCT
1 TCGAGCAAAAAGTTAAACAAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCT
* * * *
2465110 TCTCATTATGAACACTTCTGGAAAATGTTTATCCATCAAGAGATGAAT
66 TCTCATTATGAACACATCTAGAAAATGATGATCCATCAAGAGATGAAT
* * * *
2465158 TCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCT
1 TCGAGCAAAAAGTTAAACAAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCT
* *
2465223 TCTCATTATGAACTTCATCTAG-CAATGATGATCCAT
66 TCTCATTATGAAC-ACATCTAGAAAATGATGATCCAT
2465259 TGAATGATGG
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
113 84 0.94
114 5 0.06
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (113 bp):
TCGAGCAAAAAGTTAAACAAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCT
TCTCATTATGAACACATCTAGAAAATGATGATCCATCAAGAGATGAAT
Found at i:2465732 original size:95 final size:95
Alignment explanation
Indices: 2465569--2465768 Score: 382
Period size: 95 Copynumber: 2.1 Consensus size: 95
2465559 TGCAACATGT
2465569 TGATTCTGATAACAACTCATCTGATTATGAAGTGACCTTTCAAGATGATTTCACAGATATCGATA
1 TGATTCTGATAACAACTCATCTGATTATGAAGTGACCTTTCAAGATGATTTCACAGATATCGATA
*
2465634 GTTCTTTTAATACCGAGAAATCTTGATTTC
66 GTTCTTTTAATACCGAGAAATCTTGAATTC
*
2465664 TGATTCTGATAACAACTCATCTGATTATGAAGTGACCTTTCAAGATGATTTCACATATATCGATA
1 TGATTCTGATAACAACTCATCTGATTATGAAGTGACCTTTCAAGATGATTTCACAGATATCGATA
2465729 GTTCTTTTAATACCGAGAAATCTTGAATTC
66 GTTCTTTTAATACCGAGAAATCTTGAATTC
2465759 TGATTCTGAT
1 TGATTCTGAT
2465769 GAGGAGAATA
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 103 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (95 bp):
TGATTCTGATAACAACTCATCTGATTATGAAGTGACCTTTCAAGATGATTTCACAGATATCGATA
GTTCTTTTAATACCGAGAAATCTTGAATTC
Found at i:2466191 original size:92 final size:85
Alignment explanation
Indices: 2466095--2466487 Score: 554
Period size: 83 Copynumber: 4.6 Consensus size: 85
2466085 GGTTTTATAT
* * * *
2466095 CAAACCAAATCAGAGAACTCAAAGAACACTTCCAGAAGATGTTATTAGCACATTCCTCTTCAAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCAAAA
*
2466160 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTC---AA-T-GATCTGTGGTT--TAC
*
2466187 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCAAAA
2466252 TTCAATGAT-TGAT--TTTAC
66 TTCAATGATCTG-TGGTTTAC
*
2466270 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCAAAA
2466335 TTCAATGAT-TGAT--TTTAC
66 TTCAATGATCTG-TGGTTTAC
*
2466353 CAAACCAGATCAGATAACTCAAAAAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCAAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCAAAA
2466418 TT-AATGA-C--TGGTTCTAC
66 TTCAATGATCTGTGGTT-TAC
2466435 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
2466488 GGCATTTGTT
Statistics
Matches: 287, Mismatches: 9, Indels: 20
0.91 0.03 0.06
Matches are distributed among these distances:
79 1 0.00
81 2 0.01
82 60 0.21
83 151 0.53
85 2 0.01
86 2 0.01
87 3 0.01
88 1 0.00
89 2 0.01
92 63 0.22
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (85 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCAAAA
TTCAATGATCTGTGGTTTAC
Found at i:2466323 original size:83 final size:83
Alignment explanation
Indices: 2466184--2466487 Score: 556
Period size: 83 Copynumber: 3.7 Consensus size: 83
2466174 CTGTGGTTCA
2466184 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
2466249 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
2466267 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
2466332 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
* *
2466350 TACCAAACCAGATCAGATAACTCAAAAAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCA
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
* * *
2466415 AAATT-AATGACTGGTTC
66 AAATTCAATGATTGATTT
2466432 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
2466488 GGCATTTGTT
Statistics
Matches: 215, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
82 64 0.30
83 151 0.70
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
AAATTCAATGATTGATTT
Found at i:2467532 original size:16 final size:17
Alignment explanation
Indices: 2467479--2467533 Score: 69
Period size: 16 Copynumber: 3.2 Consensus size: 17
2467469 TTCATAGAAG
*
2467479 AATAAATTGAATTTTCGAA
1 AATAAATTGAATCTT--AA
2467498 AATAAATTGAATCTT-A
1 AATAAATTGAATCTTAA
2467514 AATAAATTGAA-CTTAA
1 AATAAATTGAATCTTAA
2467530 AATA
1 AATA
2467534 GATAGAATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
15 3 0.09
16 17 0.50
19 14 0.41
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (17 bp):
AATAAATTGAATCTTAA
Found at i:2467872 original size:14 final size:13
Alignment explanation
Indices: 2467853--2467931 Score: 74
Period size: 14 Copynumber: 5.9 Consensus size: 13
2467843 CTTGACCCCC
2467853 TTTTTTTCTTTCTT
1 TTTTTTTC-TTCTT
2467867 TTTTTTTC--CTT
1 TTTTTTTCTTCTT
*
2467878 TTTCTTT-TTCTT
1 TTTTTTTCTTCTT
2467890 CTTTTTTTCTTCTT
1 -TTTTTTTCTTCTT
*
2467904 TTTCTTTTCTTTTT
1 TTT-TTTTCTTCTT
2467918 CTTCTTTTTCTTCT
1 -TT-TTTTTCTTCT
2467932 CTTCAAGCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
11 9 0.17
12 3 0.06
13 9 0.17
14 22 0.41
15 10 0.19
16 1 0.02
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTTCTTCTT
Found at i:2467892 original size:26 final size:27
Alignment explanation
Indices: 2467855--2467931 Score: 104
Period size: 26 Copynumber: 2.8 Consensus size: 27
2467845 TGACCCCCTT
2467855 TTTTTCTTTCTTTTTTT-TTCCTTTTTC
1 TTTTTCTTTCTTTTTTTCTT-CTTTTTC
2467882 TTTTTC-TTCTTTTTTTCTTCTTTTTC
1 TTTTTCTTTCTTTTTTTCTTCTTTTTC
*
2467908 TTTTCTTTTTCTTCTTTTTCTTCT
1 TTTT-TCTTTCTT-TTTTTCTTCT
2467932 CTTCAAGCAT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
26 21 0.47
27 9 0.20
28 5 0.11
29 10 0.22
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTTTCTTTCTTTTTTTCTTCTTTTTC
Found at i:2467895 original size:37 final size:40
Alignment explanation
Indices: 2467852--2467931 Score: 121
Period size: 38 Copynumber: 2.0 Consensus size: 40
2467842 TCTTGACCCC
2467852 CTTTTTTTCTTTCTTTTT-TTTTC-CTTT-TTCTTTTTCTT
1 CTTTTTTTC-TTCTTTTTCTTTTCTCTTTCTTCTTTTTCTT
*
2467890 CTTTTTTTCTTCTTTTTCTTTTCTTTTTCTTCTTTTTCTT
1 CTTTTTTTCTTCTTTTTCTTTTCTCTTTCTTCTTTTTCTT
2467930 CT
1 CT
2467932 CTTCAAGCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
37 8 0.21
38 14 0.37
39 3 0.08
40 13 0.34
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (40 bp):
CTTTTTTTCTTCTTTTTCTTTTCTCTTTCTTCTTTTTCTT
Found at i:2467927 original size:20 final size:20
Alignment explanation
Indices: 2467855--2467934 Score: 96
Period size: 20 Copynumber: 4.1 Consensus size: 20
2467845 TGACCCCCTT
2467855 TTTTTCTTTCTTTTT-TTTTC
1 TTTTTC-TTCTTTTTCTTTTC
*
2467875 -CTTT-TTCTTTTTCTTCTT-
1 TTTTTCTTCTTTTTCTT-TTC
2467893 TTTTTCTTCTTTTTCTTTTC
1 TTTTTCTTCTTTTTCTTTTC
*
2467913 TTTTTCTTCTTTTTCTTCTC
1 TTTTTCTTCTTTTTCTTTTC
2467933 TT
1 TT
2467935 CAAGCATAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
17 8 0.15
18 2 0.04
19 10 0.19
20 32 0.62
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTCTTCTTTTTCTTTTC
Found at i:2467928 original size:9 final size:9
Alignment explanation
Indices: 2467861--2467931 Score: 78
Period size: 9 Copynumber: 7.9 Consensus size: 9
2467851 CCTTTTTTTC
2467861 TTTCTT-TT
1 TTTCTTCTT
2467869 TTT-TTCCTT
1 TTTCTT-CTT
2467878 TTTCTT-TT
1 TTTCTTCTT
2467886 TCTTCTT-TT
1 T-TTCTTCTT
2467895 TTTCTTCTT
1 TTTCTTCTT
2467904 TTTCTTTTCTT
1 TTTC--TTCTT
2467915 TTTCTTCTT
1 TTTCTTCTT
2467924 TTTCTTCT
1 TTTCTTCT
2467932 CTTCAAGCAT
Statistics
Matches: 56, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
7 2 0.04
8 11 0.20
9 32 0.57
10 2 0.04
11 9 0.16
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTCTT
Found at i:2467934 original size:11 final size:10
Alignment explanation
Indices: 2467855--2467934 Score: 80
Period size: 11 Copynumber: 8.2 Consensus size: 10
2467845 TGACCCCCTT
2467855 TTTTTCTTTC
1 TTTTTCTTTC
*
2467865 TTTTTTTTTCC
1 TTTTTCTTT-C
2467876 TTTTTCTTT-
1 TTTTTCTTTC
*
2467885 TTCTTC-TT-
1 TTTTTCTTTC
2467893 TTTTTC-TTC
1 TTTTTCTTTC
2467902 TTTTTCTTTTC
1 TTTTTC-TTTC
2467913 TTTTTC-TTC
1 TTTTTCTTTC
2467922 TTTTTCTTCTC
1 TTTTTCTT-TC
2467933 TT
1 TT
2467935 CAAGCATAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
8 9 0.15
9 20 0.33
10 9 0.15
11 22 0.37
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:2475269 original size:15 final size:15
Alignment explanation
Indices: 2475246--2475277 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2475236 TGAAATGAAT
2475246 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
2475261 AATGCATGTATGCAA
1 AATGAATGTATGCAA
2475276 AA
1 AA
2475278 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:2478582 original size:23 final size:22
Alignment explanation
Indices: 2478534--2478585 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
2478524 ACAGAAAAAT
*
2478534 AAAATAAAAAAAATATCTAAAT
1 AAAATAAAAAAAATATCTAAAG
*
2478556 AAAAT-AAAAAAATAATTTGAAAG
1 AAAATAAAAAAAAT-ATCT-AAAG
2478579 AAAATAA
1 AAAATAA
2478586 TTAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 8 0.32
22 8 0.32
23 8 0.32
24 1 0.04
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (22 bp):
AAAATAAAAAAAATATCTAAAG
Found at i:2480700 original size:3 final size:3
Alignment explanation
Indices: 2480671--2480742 Score: 81
Period size: 3 Copynumber: 23.0 Consensus size: 3
2480661 TTGGGTTTTG
* *
2480671 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
2480718 TTA TAA TTA TAA TAAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA
2480743 AAATGGGTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
3 49 0.84
4 9 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:2481344 original size:12 final size:12
Alignment explanation
Indices: 2481327--2481362 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2481317 AGTAAAGGAA
2481327 AATCAAAATCGC
1 AATCAAAATCGC
*
2481339 AATCAAAATCCC
1 AATCAAAATCGC
*
2481351 AATCACAATCGC
1 AATCAAAATCGC
2481363 CTTCACCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.47, C:0.31, G:0.06, T:0.17
Consensus pattern (12 bp):
AATCAAAATCGC
Found at i:2481738 original size:20 final size:20
Alignment explanation
Indices: 2481710--2481841 Score: 94
Period size: 20 Copynumber: 6.5 Consensus size: 20
2481700 GCCTAGTGAA
*
2481710 AATTTGCAACTCGAAAATTG
1 AATTCGCAACTCGAAAATTG
2481730 AATTCGCAACAT-GAAAATTG
1 AATTCGCAAC-TCGAAAATTG
* * *
2481750 AATTCGAAAATTC-ACAACA-CG
1 AATTCG-CAACTCGA-AA-ATTG
* * *
2481771 AAAATCGCAACTCG-ATATTAA
1 -AATTCGCAACTCGAAAATT-G
*
2481792 AATTCGCAACTCGAAAATCG
1 AATTCGCAACTCGAAAATTG
2481812 AATTCGCAACTCGAAAA-TG
1 AATTCGCAACTCGAAAATTG
2481831 AAATTCGCAAC
1 -AATTCGCAAC
2481842 CTTTAATGGG
Statistics
Matches: 86, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
19 2 0.02
20 65 0.76
21 13 0.15
22 6 0.07
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (20 bp):
AATTCGCAACTCGAAAATTG
Found at i:2483967 original size:21 final size:21
Alignment explanation
Indices: 2483941--2484001 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
2483931 AATATGGAAT
2483941 GTGGATCCTAAACGATGCGG-G
1 GTGGATCCTAAACGATG-GGCG
*
2483962 GTGGATCCTGAACGATGGGCG
1 GTGGATCCTAAACGATGGGCG
* *
2483983 GTGGATCCTGAACAATGGG
1 GTGGATCCTAAACGATGGG
2484002 AGGGGCCTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 2 0.05
21 35 0.95
ACGTcount: A:0.23, C:0.18, G:0.39, T:0.20
Consensus pattern (21 bp):
GTGGATCCTAAACGATGGGCG
Found at i:2484379 original size:21 final size:21
Alignment explanation
Indices: 2484353--2484548 Score: 182
Period size: 21 Copynumber: 9.3 Consensus size: 21
2484343 TGAAACAATC
*
2484353 TCACGTAGAGCACCTACCTCA
1 TCACGTAAAGCACCTACCTCA
*
2484374 TCACGTAAAGCATCTACCTCA
1 TCACGTAAAGCACCTACCTCA
* ** **
2484395 CCACGTAAAATACCATTGC-CA
1 TCACGTAAAGCACC-TACCTCA
* *
2484416 TTACGTAAAGCATCTACCTCA
1 TCACGTAAAGCACCTACCTCA
*
2484437 CCACGTAAAGCACCTACCTCA
1 TCACGTAAAGCACCTACCTCA
* **
2484458 TCACATAAAGCACC-ATTGTCA
1 TCACGTAAAGCACCTA-CCTCA
* *
2484479 TCATGTAAAGCACCGACCTCA
1 TCACGTAAAGCACCTACCTCA
*
2484500 TCACATAAAGCA-CTGACCTCA
1 TCACGTAAAGCACCT-ACCTCA
*
2484521 TCACGTAAAGCACCTAACTCA
1 TCACGTAAAGCACCTACCTCA
*
2484542 TCCCGTA
1 TCACGTA
2484549 GAGGTGGAGA
Statistics
Matches: 137, Mismatches: 32, Indels: 12
0.76 0.18 0.07
Matches are distributed among these distances:
20 4 0.03
21 128 0.93
22 5 0.04
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.21
Consensus pattern (21 bp):
TCACGTAAAGCACCTACCTCA
Found at i:2484422 original size:63 final size:62
Alignment explanation
Indices: 2484353--2484534 Score: 220
Period size: 63 Copynumber: 2.9 Consensus size: 62
2484343 TGAAACAATC
* * *
2484353 TCACGTAGAGCACCTACCTCATCACGTAAAGCATCTACCTCACCACGTAAAATACCATTGCCA
1 TCACGTAAAGCACCTACCTCATCACGTAAAGCA-CTACCTCATCACGTAAAACACCATTGCCA
* * * * * *
2484416 TTACGTAAAGCATCTACCTCACCACGTAAAGCACCTACCTCATCACATAAAGCACCATTGTCA
1 TCACGTAAAGCACCTACCTCATCACGTAAAGCA-CTACCTCATCACGTAAAACACCATTGCCA
* * * *
2484479 TCATGTAAAGCACCGACCTCATCACATAAAGCACTGACCTCATCACGTAAAGCACC
1 TCACGTAAAGCACCTACCTCATCACGTAAAGCACT-ACCTCATCACGTAAAACACC
2484535 TAACTCATCC
Statistics
Matches: 101, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
62 2 0.02
63 99 0.98
ACGTcount: A:0.35, C:0.34, G:0.11, T:0.20
Consensus pattern (62 bp):
TCACGTAAAGCACCTACCTCATCACGTAAAGCACTACCTCATCACGTAAAACACCATTGCCA
Found at i:2484738 original size:42 final size:41
Alignment explanation
Indices: 2484643--2484850 Score: 242
Period size: 42 Copynumber: 5.0 Consensus size: 41
2484633 GTGATGGAAT
* * * * *
2484643 AGGTGATGGATCTAGGTATCGAGGTGTAGAGTCGGCT--A-G
1 AGGTGATGGATCTCGGTGTCGAAGTGGAGAATC-GCTCGATG
* * *
2484682 AGCTGATGGATCTCGGTGTCGAGGTGTAGAATCAGCTCGATG
1 AGGTGATGGATCTCGGTGTCGAAGTGGAGAATC-GCTCGATG
*
2484724 AGGTGATGGATCTCGGTGTCGAAGTGGATAATCGACTCGATG
1 AGGTGATGGATCTCGGTGTCGAAGTGGAGAATCG-CTCGATG
2484766 AGGTGATGGATCTCGGTGTCGAAGTGGAGAATCGACTCGATG
1 AGGTGATGGATCTCGGTGTCGAAGTGGAGAATCG-CTCGATG
* * *
2484808 AGGTGATGGATCTCAGTGTTGAAGTGGAGAATCTACTCGATG
1 AGGTGATGGATCTCGGTGTCGAAGTGGAGAATC-GCTCGATG
2484850 A
1 A
2484851 AAAAGTGGGG
Statistics
Matches: 151, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 32 0.21
41 2 0.01
42 117 0.77
ACGTcount: A:0.24, C:0.13, G:0.37, T:0.26
Consensus pattern (41 bp):
AGGTGATGGATCTCGGTGTCGAAGTGGAGAATCGCTCGATG
Found at i:2484851 original size:21 final size:21
Alignment explanation
Indices: 2484786--2484851 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
2484776 TCTCGGTGTC
*
2484786 GAAGTGGAGAATCGACTCGAT
1 GAAGTGGAGAATCTACTCGAT
* * * *
2484807 GAGGT-GATGGATCTCAGT-GTT
1 GAAGTGGA-GAATCT-ACTCGAT
2484828 GAAGTGGAGAATCTACTCGAT
1 GAAGTGGAGAATCTACTCGAT
2484849 GAA
1 GAA
2484852 AAAGTGGGGG
Statistics
Matches: 32, Mismatches: 9, Indels: 8
0.65 0.18 0.16
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.24
Consensus pattern (21 bp):
GAAGTGGAGAATCTACTCGAT
Found at i:2486335 original size:20 final size:20
Alignment explanation
Indices: 2486291--2486336 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2486281 GCAACTCGAA
* * *
2486291 TTTCATTTTCGAGTTGTGAT
1 TTTCGTTTTCAAGTTGCGAT
2486311 TTTCGTTTTCAAGTTGCGAT
1 TTTCGTTTTCAAGTTGCGAT
2486331 TTTCGT
1 TTTCGT
2486337 GTTGCGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.20, T:0.54
Consensus pattern (20 bp):
TTTCGTTTTCAAGTTGCGAT
Found at i:2486720 original size:20 final size:20
Alignment explanation
Indices: 2486695--2486744 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
2486685 TGTGAAAGAT
* *
2486695 GGAGATGGAGGGGGGTCACC
1 GGAGATGGACGGAGGTCACC
*
2486715 GGAGATAGGGACGGATGTCACC
1 GGAGAT--GGACGGAGGTCACC
2486737 GGAGATGG
1 GGAGATGG
2486745 GGACGGATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 8 0.32
22 17 0.68
ACGTcount: A:0.24, C:0.14, G:0.50, T:0.12
Consensus pattern (20 bp):
GGAGATGGACGGAGGTCACC
Found at i:2486736 original size:22 final size:22
Alignment explanation
Indices: 2486709--2486752 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2486699 ATGGAGGGGG
2486709 GTCACCGGAGATAGGGACGGAT
1 GTCACCGGAGATAGGGACGGAT
*
2486731 GTCACCGGAGATGGGGACGGAT
1 GTCACCGGAGATAGGGACGGAT
2486753 AGAGATGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.18, G:0.43, T:0.14
Consensus pattern (22 bp):
GTCACCGGAGATAGGGACGGAT
Found at i:2486922 original size:20 final size:20
Alignment explanation
Indices: 2486853--2487019 Score: 95
Period size: 20 Copynumber: 8.3 Consensus size: 20
2486843 GTTGATTTTT
* *
2486853 GAAATTTAAATTCGCCTTGC
1 GAAATTGAAATTCGCGTTGC
* *
2486873 GAATTTGAAAATT-GAGTTGC
1 GAAATTG-AAATTCGCGTTGC
** *
2486893 GAAAACGAAATTCGCGTTAC
1 GAAATTGAAATTCGCGTTGC
* *
2486913 GAAATTGAAACTCGCTTTGC
1 GAAATTGAAATTCGCGTTGC
* *
2486933 G-AATTAGAAAATCGAGTTGC
1 GAAATT-GAAATTCGCGTTGC
*** * *
2486953 GAAAACAAAACTCGTGTTGC
1 GAAATTGAAATTCGCGTTGC
* * * *
2486973 GAATTTAAAAATCGAGTTGC
1 GAAATTGAAATTCGCGTTGC
** *
2486993 GAAAAAGAAATTCGTGTTGC
1 GAAATTGAAATTCGCGTTGC
2487013 GAAATTG
1 GAAATTG
2487020 TTAAATTCTA
Statistics
Matches: 108, Mismatches: 35, Indels: 8
0.72 0.23 0.05
Matches are distributed among these distances:
19 9 0.08
20 92 0.85
21 7 0.06
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (20 bp):
GAAATTGAAATTCGCGTTGC
Found at i:2486956 original size:40 final size:40
Alignment explanation
Indices: 2486920--2487015 Score: 135
Period size: 40 Copynumber: 2.4 Consensus size: 40
2486910 TACGAAATTG
2486920 AAACTCGCT-TTGCGAA-TTAGAAAATCGAGTTGCGAAAACA
1 AAACTCG-TGTTGCGAATTTA-AAAATCGAGTTGCGAAAACA
2486960 AAACTCGTGTTGCGAATTTAAAAATCGAGTTGCGAAAA-A
1 AAACTCGTGTTGCGAATTTAAAAATCGAGTTGCGAAAACA
*
2486999 GAAATTCGTGTTGCGAA
1 -AAACTCGTGTTGCGAA
2487016 ATTGTTAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
39 2 0.04
40 47 0.90
41 3 0.06
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.25
Consensus pattern (40 bp):
AAACTCGTGTTGCGAATTTAAAAATCGAGTTGCGAAAACA
Found at i:2486993 original size:60 final size:60
Alignment explanation
Indices: 2486869--2487016 Score: 161
Period size: 60 Copynumber: 2.5 Consensus size: 60
2486859 TAAATTCGCC
* * * * * * **
2486869 TTGCGAATTTGAAAATTGAGTTGCGAAAACGAAATTCGCGTTACGAAATTGAAACTCGCT
1 TTGCGAATTAGAAAATCGAGTTGCGAAAACAAAACTCGCGTTACGAAATTAAAAATCGAG
* * *
2486929 TTGCGAATTAGAAAATCGAGTTGCGAAAACAAAACTCGTGTTGCGAATTTAAAAATCGAG
1 TTGCGAATTAGAAAATCGAGTTGCGAAAACAAAACTCGCGTTACGAAATTAAAAATCGAG
** * *
2486989 TTGCGAAAAAGAAATTCGTGTTGCGAAA
1 TTGCGAATTAGAAAATCGAGTTGCGAAA
2487017 TTGTTAAATT
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 73 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (60 bp):
TTGCGAATTAGAAAATCGAGTTGCGAAAACAAAACTCGCGTTACGAAATTAAAAATCGAG
Found at i:2487437 original size:18 final size:18
Alignment explanation
Indices: 2487403--2487436 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
2487393 TCACCCAATT
2487403 ATTATTAGATTTATTTTA
1 ATTATTAGATTTATTTTA
2487421 ATTATTA-ATTTATTTT
1 ATTATTAGATTTATTTT
2487437 TCCAAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTATTAGATTTATTTTA
Found at i:2497945 original size:117 final size:117
Alignment explanation
Indices: 2497739--2497972 Score: 459
Period size: 117 Copynumber: 2.0 Consensus size: 117
2497729 CCTTTCTTCT
2497739 CCAGAAATTACCACGTGAAAACCAAACTCAAAATATCCTCTCTTCTCTTCTTCCTTTCCTCTCCC
1 CCAGAAATTACCACGTGAAAACCAAACTCAAAATATCCTCTCTTCTCTTCTTCCTTTCCTCTCCC
2497804 ACTGTTCAGCAAAGAAGTGAGAGCCTTTGAGATTTCAAGCTTAGATTGAAGA
66 ACTGTTCAGCAAAGAAGTGAGAGCCTTTGAGATTTCAAGCTTAGATTGAAGA
*
2497856 CCAGAAATTTCCACGTGAAAACCAAACTCAAAATATCCTCTCTTCTCTTCTTCCTTTCCTCTCCC
1 CCAGAAATTACCACGTGAAAACCAAACTCAAAATATCCTCTCTTCTCTTCTTCCTTTCCTCTCCC
2497921 ACTGTTCAGCAAAGAAGTGAGAGCCTTTGAGATTTCAAGCTTAGATTGAAGA
66 ACTGTTCAGCAAAGAAGTGAGAGCCTTTGAGATTTCAAGCTTAGATTGAAGA
2497973 AATTAAGGTA
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (117 bp):
CCAGAAATTACCACGTGAAAACCAAACTCAAAATATCCTCTCTTCTCTTCTTCCTTTCCTCTCCC
ACTGTTCAGCAAAGAAGTGAGAGCCTTTGAGATTTCAAGCTTAGATTGAAGA
Found at i:2502945 original size:22 final size:22
Alignment explanation
Indices: 2502893--2502948 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
2502883 ATATCAAATA
* * *
2502893 TATATATTTAAATTTGTTTTTAT
1 TATATATTT-AATCTCTTATTAT
*
2502916 TTTA-ATTTAATCTCTTATTAT
1 TATATATTTAATCTCTTATTAT
2502937 TATATATTTAAT
1 TATATATTTAAT
2502949 TATTTTTTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 13 0.48
22 11 0.41
23 3 0.11
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (22 bp):
TATATATTTAATCTCTTATTAT
Found at i:2503049 original size:2 final size:2
Alignment explanation
Indices: 2503042--2503070 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2503032 ACTAATATTC
2503042 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2503071 TTCCTTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2503147 original size:28 final size:29
Alignment explanation
Indices: 2503106--2503173 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
2503096 CCGTTATATA
*
2503106 TATTTTTTTA--ATTTTTTTATTC-TATT
1 TATTTTTTTACTATTTATTTATTCTTATT
2503132 CT-TTTTTTTACTATTTATTTATTCTTATT
1 -TATTTTTTTACTATTTATTTATTCTTATT
2503161 TAATTTTTTTACT
1 T-ATTTTTTTACT
2503174 TATTAAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
26 8 0.23
27 1 0.03
28 12 0.34
29 4 0.11
30 10 0.29
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (29 bp):
TATTTTTTTACTATTTATTTATTCTTATT
Found at i:2503176 original size:23 final size:22
Alignment explanation
Indices: 2503106--2503177 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 22
2503096 CCGTTATATA
2503106 TATT-TTTTTAATTTTTTTATT
1 TATTCTTTTTAATTTTTTTATT
2503127 CTATTCTTTTT--TTTACTATTTATT
1 -TATTCTTTTTAATTT--T-TTTATT
*
2503151 TATTCTTATTTAATTTTTTTACT
1 TATTCTT-TTTAATTTTTTTATT
2503174 TATT
1 TATT
2503178 AAATATTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
21 3 0.07
22 4 0.10
23 22 0.52
24 10 0.24
26 3 0.07
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (22 bp):
TATTCTTTTTAATTTTTTTATT
Found at i:2503177 original size:17 final size:16
Alignment explanation
Indices: 2503116--2503177 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 16
2503106 TATTTTTTTA
*
2503116 ATTTTTTTATTCTATTCT
1 ATTTTTTTACT-TATT-T
2503134 -TTTTTTTAC-TATTT
1 ATTTTTTTACTTATTT
*
2503148 A-TTTATT-CTTATTT
1 ATTTTTTTACTTATTT
2503162 AATTTTTTTACTTATT
1 -ATTTTTTTACTTATT
2503178 AAATATTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
13 1 0.03
14 11 0.31
15 5 0.14
16 5 0.14
17 14 0.39
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTTTTTTACTTATTT
Found at i:2503280 original size:21 final size:22
Alignment explanation
Indices: 2503256--2503302 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
2503246 TCTTCATGTC
2503256 TTCTCTCTTTTT-AACCAAATT
1 TTCTCTCTTTTTCAACCAAATT
* * *
2503277 TTCTCTTTTTTTCGATCAAATT
1 TTCTCTCTTTTTCAACCAAATT
2503299 TTCT
1 TTCT
2503303 TTTTTCGGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.19, C:0.21, G:0.02, T:0.57
Consensus pattern (22 bp):
TTCTCTCTTTTTCAACCAAATT
Found at i:2503288 original size:22 final size:21
Alignment explanation
Indices: 2503263--2503307 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
2503253 GTCTTCTCTC
2503263 TTTTT-AACCAAATTTTCTCTT
1 TTTTTCAACCAAATTTTCT-TT
* *
2503284 TTTTTCGATCAAATTTTCTTT
1 TTTTTCAACCAAATTTTCTTT
2503305 TTT
1 TTT
2503308 CGGTGAAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.20, C:0.16, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTTCAACCAAATTTTCTTT
Found at i:2503474 original size:14 final size:14
Alignment explanation
Indices: 2503455--2503485 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2503445 TTTTTATTTA
2503455 TTTTTTCTTCTTCT
1 TTTTTTCTTCTTCT
2503469 TTTTTTCTTCTTCT
1 TTTTTTCTTCTTCT
2503483 TTT
1 TTT
2503486 AATTATTTAT
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:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTCTTCTTCT
Found at i:2505167 original size:22 final size:22
Alignment explanation
Indices: 2505115--2505167 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
2505105 AGTGCTTTGG
* * *
2505115 CACTAGTACGGAAGTGCCTTAA
1 CACTAATACGGAAGTACATTAA
* * *
2505137 CATTGATACGGAAGTACATTTA
1 CACTAATACGGAAGTACATTAA
2505159 CACTAATAC
1 CACTAATAC
2505168 TAAAATGTCT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (22 bp):
CACTAATACGGAAGTACATTAA
Found at i:2505462 original size:22 final size:22
Alignment explanation
Indices: 2505433--2505486 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2505423 GGATACTCAG
2505433 TCTT-GGGTATCGCTACTTCCC
1 TCTTAGGGTATCGCTACTTCCC
*
2505454 TCTTAGGGTATCGGTACTTCCC
1 TCTTAGGGTATCGCTACTTCCC
2505476 TCTTAGGGTAT
1 TCTTAGGGTAT
2505487 TTATACTTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.13, C:0.26, G:0.22, T:0.39
Consensus pattern (22 bp):
TCTTAGGGTATCGCTACTTCCC
Found at i:2505493 original size:22 final size:22
Alignment explanation
Indices: 2505433--2505497 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
2505423 GGATACTCAG
*
2505433 TCTT-GGGTATCGCTACTTCCC
1 TCTTAGGGTATCGATACTTCCC
*
2505454 TCTTAGGGTATCGGTACTTCCC
1 TCTTAGGGTATCGATACTTCCC
**
2505476 TCTTAGGGTATTTATACTTCCC
1 TCTTAGGGTATCGATACTTCCC
2505498 CGAGTATCGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 4 0.10
22 35 0.90
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.40
Consensus pattern (22 bp):
TCTTAGGGTATCGATACTTCCC
Found at i:2508775 original size:21 final size:21
Alignment explanation
Indices: 2508750--2508797 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
2508740 CCTAATATTG
2508750 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
2508771 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
2508792 CAATGT
1 CAATGT
2508798 TTGAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:2511518 original size:21 final size:21
Alignment explanation
Indices: 2511493--2511540 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
2511483 CCTAATATTG
2511493 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
2511514 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
2511535 CAATGT
1 CAATGT
2511541 TTGAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:2513715 original size:33 final size:33
Alignment explanation
Indices: 2513657--2513739 Score: 150
Period size: 33 Copynumber: 2.5 Consensus size: 33
2513647 CTTTATTTTG
2513657 TTCGGGTCGGGTCGGG-TTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
2513689 TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
*
2513722 TTCGGGTCGGGTCTGGTT
1 TTCGGGTCGGGTCGGGTT
2513740 CGGGTTTAGG
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 16 0.33
33 33 0.67
ACGTcount: A:0.10, C:0.11, G:0.39, T:0.41
Consensus pattern (33 bp):
TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
Found at i:2518192 original size:20 final size:21
Alignment explanation
Indices: 2518150--2518195 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
2518140 TATTTTGCAG
2518150 AGAAAACATCCCCAAACGGCT
1 AGAAAACATCCCCAAACGGCT
*
2518171 AGAAAGCATCCCCAAA-GGCT
1 AGAAAACATCCCCAAACGGCT
2518191 AGAAA
1 AGAAA
2518196 TGGCTACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.46, C:0.28, G:0.17, T:0.09
Consensus pattern (21 bp):
AGAAAACATCCCCAAACGGCT
Found at i:2520836 original size:18 final size:18
Alignment explanation
Indices: 2520815--2520850 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2520805 GTTTTTTTAA
2520815 CGGTTCGGGTTTTCGGTT
1 CGGTTCGGGTTTTCGGTT
*
2520833 CGGTTCGGTTTTTCGGTT
1 CGGTTCGGGTTTTCGGTT
2520851 TTTCAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.36, T:0.47
Consensus pattern (18 bp):
CGGTTCGGGTTTTCGGTT
Found at i:2521953 original size:13 final size:13
Alignment explanation
Indices: 2521935--2521959 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2521925 AATATAATAT
2521935 TTATTTTTTATAA
1 TTATTTTTTATAA
2521948 TTATTTTTTATA
1 TTATTTTTTATA
2521960 TTTTGAATTA
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTTTTTATAA
Found at i:2522068 original size:72 final size:72
Alignment explanation
Indices: 2521991--2522222 Score: 186
Period size: 72 Copynumber: 3.2 Consensus size: 72
2521981 TAAGAATTTT
*
2521991 TAATTTATTTTTATTGTAAATCTTTCATCAATTACAATTTAATATATTAGATTTGTTTAATTATT
1 TAATTTATTTTTATTGTAAATCTTTTATCAATTACAATTTAATATATTAGATTTGTTTAATTATT
2522056 TATGTGA
66 TATGTGA
* ** * * * * * *
2522063 TAATTTA-TTTTATTTTATTTTATTTTAT--TTTAAAATTTATAATTATTTTTATATTTATAATT
1 TAATTTATTTTTATTGTA-AATCTTTTATCAATTACAA-TT-TAA-TA-TATTAGATTTGT--TT
* *
2522125 -ATTTTTTAAAATAT-A
59 AATTATTT---ATGTGA
* * * *
2522140 AAATATATTTTTATTGTAAATCTTTTATCAATTACAATTTAAAATATTAGTTTTGTTTAATTATT
1 TAATTTATTTTTATTGTAAATCTTTTATCAATTACAATTTAATATATTAGATTTGTTTAATTATT
2522205 TATGTGA
66 TATGTGA
*
2522212 TATTTTATTTT
1 TAATTTATTTT
2522223 AAAATTTATA
Statistics
Matches: 115, Mismatches: 30, Indels: 30
0.66 0.17 0.17
Matches are distributed among these distances:
70 5 0.04
71 14 0.12
72 25 0.22
73 4 0.03
74 15 0.13
75 14 0.12
76 3 0.03
77 16 0.14
78 14 0.12
79 5 0.04
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (72 bp):
TAATTTATTTTTATTGTAAATCTTTTATCAATTACAATTTAATATATTAGATTTGTTTAATTATT
TATGTGA
Done.