Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 3 of 132
Found at i:655286 original size:22 final size:22
Alignment explanation
Indices: 655228--655298 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
655218 GATCAAAAAT
*
655228 AACGGTCAAAGTCAACAATTGGTC
1 AACGGTC-AA-TCAACAATCGGTC
* ** *
655252 AACGGCCGGTCAACAGTCGGTC
1 AACGGTCAATCAACAATCGGTC
*
655274 AACGGTCAATCAACAACCGGTC
1 AACGGTCAATCAACAATCGGTC
655296 AAC
1 AAC
655299 AATTTGACTT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
22 31 0.84
24 6 0.16
ACGTcount: A:0.34, C:0.28, G:0.23, T:0.15
Consensus pattern (22 bp):
AACGGTCAATCAACAATCGGTC
Found at i:658781 original size:21 final size:21
Alignment explanation
Indices: 658756--658799 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
658746 AAATTAAAAA
658756 AAATTAAAAT-TGTTGTAGCTT
1 AAATTAAAATCTGTTGTA-CTT
*
658777 AAATTCAAATCCTGTTGTACTT
1 AAATTAAAAT-CTGTTGTACTT
658799 A
1 A
658800 TATATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (21 bp):
AAATTAAAATCTGTTGTACTT
Found at i:669779 original size:29 final size:30
Alignment explanation
Indices: 669747--669803 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
669737 TTCGATGCCC
669747 AGGGGCAAAACGGT-AATTTTGGACACTTT
1 AGGGGCAAAACGGTAAATTTTGGACACTTT
* * *
669776 AGGGGTAAGATGGTAAATTTTGGACACT
1 AGGGGCAAAACGGTAAATTTTGGACACT
669804 CGGGGGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.28
Consensus pattern (30 bp):
AGGGGCAAAACGGTAAATTTTGGACACTTT
Found at i:669817 original size:28 final size:30
Alignment explanation
Indices: 669761--669825 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 30
669751 GCAAAACGGT
*
669761 AATTTTGGACACTTTAGGGGTAAGATGGTA
1 AATTTTGGACACTTCAGGGGTAAGATGGTA
*
669791 AATTTTGGACAC-TCGGGGGTAA-ATGGTA
1 AATTTTGGACACTTCAGGGGTAAGATGGTA
*
669819 ATTTTTG
1 AATTTTG
669826 AAAGGTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 12 0.38
29 8 0.25
30 12 0.38
ACGTcount: A:0.28, C:0.08, G:0.29, T:0.35
Consensus pattern (30 bp):
AATTTTGGACACTTCAGGGGTAAGATGGTA
Found at i:669887 original size:31 final size:29
Alignment explanation
Indices: 669836--669894 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 29
669826 AAAGGTTTAG
*
669836 GGTTAAAATATAATTTTTGGAAAGTTCGA
1 GGTTAAAATATAATTTTTGGAAACTTCGA
669865 GGTTAAAATATAATTTTTTTGGAAACTTCG
1 GGTTAAAATATAA--TTTTTGGAAACTTCG
669895 GGATCAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.48
31 14 0.52
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.41
Consensus pattern (29 bp):
GGTTAAAATATAATTTTTGGAAACTTCGA
Found at i:669973 original size:30 final size:30
Alignment explanation
Indices: 669811--669974 Score: 92
Period size: 29 Copynumber: 5.4 Consensus size: 30
669801 ACTCGGGGGT
* *
669811 AAATGGTAATTTTT-GAAAGGTTTAGGGTTAA
1 AAATGG-AATTTTTGGAAA-GTTTGGGGTCAA
* * *
669842 AATAT--AATTTTTGGAAAGTTCGAGGTTAA
1 AA-ATGGAATTTTTGGAAAGTTTGGGGTCAA
* * *
669871 AATAT--AATTTTTTTGGAAACTTCGGGATCAA
1 AA-ATGGAA--TTTTTGGAAAGTTTGGGGTCAA
* *
669902 AAATAGAA-TTTTGGAAAATTCTAGGGGGT-AA
1 AAATGGAATTTTTGGAAAGTT-T--GGGGTCAA
669933 AAA-GGTAATTTTTGGAAAGTTTGGGGTCAA
1 AAATGG-AATTTTTGGAAAGTTTGGGGTCAA
669963 AAATGGAATTTT
1 AAATGGAATTTT
669975 GAAAAATTCA
Statistics
Matches: 108, Mismatches: 12, Indels: 27
0.73 0.08 0.18
Matches are distributed among these distances:
29 39 0.36
30 18 0.17
31 32 0.30
32 19 0.18
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.36
Consensus pattern (30 bp):
AAATGGAATTTTTGGAAAGTTTGGGGTCAA
Found at i:669993 original size:29 final size:29
Alignment explanation
Indices: 669881--670165 Score: 138
Period size: 29 Copynumber: 9.6 Consensus size: 29
669871 AATATAATTT
* *
669881 TTTTGGAAACTTC-GGGATCAAAAATAGAA
1 TTTTGAAAAATTCAGGG-TCAAAAATAGAA
* *
669910 TTTTGGAAAATTCTAGGGGGT-AAAAAGGTA-AT
1 TTTTGAAAAATTC-A--GGGTCAAAAA--TAGAA
* * ** *
669942 TTTTGGAAAGTTTGGGGTCAAAAATGGAA
1 TTTTGAAAAATTCAGGGTCAAAAATAGAA
* *
669971 TTTTGAAAAATTCAAAGGT-AAAAATATAA
1 TTTTGAAAAATTC-AGGGTCAAAAATAGAA
* * *
670000 TTTTTAGAAACTTTAGGGTCAAAAAT-GAAA
1 TTTTGA-AAAATTCAGGGTCAAAAATAG-AA
* * * *
670030 TTTTGAAAAGTTCGAGGAT-AAAAATATATTT
1 TTTTGAAAAATTC-AGGGTCAAAAATAGA--A
**
670061 TTTTGAAAAATTC-GTGGTCAAAAAGGGAA
1 TTTTGAAAAATTCAG-GGTCAAAAATAGAA
*
670090 TTTT-AAAAAGTTCAAGGGT-AAAAATATAA
1 TTTTGAAAAA-TTC-AGGGTCAAAAATAGAA
* *
670119 TTTTTAAAAAATTTAGGGTCAAAAATAGAA
1 -TTTTGAAAAATTCAGGGTCAAAAATAGAA
* *
670149 TTTTAAAAAATTTAGGG
1 TTTTGAAAAATTCAGGG
670166 GTTCTAAACC
Statistics
Matches: 196, Mismatches: 36, Indels: 48
0.70 0.13 0.17
Matches are distributed among these distances:
28 6 0.03
29 93 0.47
30 50 0.26
31 29 0.15
32 13 0.07
33 5 0.03
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.32
Consensus pattern (29 bp):
TTTTGAAAAATTCAGGGTCAAAAATAGAA
Found at i:670020 original size:59 final size:59
Alignment explanation
Indices: 669864--670160 Score: 274
Period size: 59 Copynumber: 4.9 Consensus size: 59
669854 GGAAAGTTCG
* * * * * * * *
669864 AGGTTAAAATATAATTTTTTTGGAAACTTCGGGATCAAAAATAGAATTTTGGAAAATTCTAGG
1 AGGTAAAAATATAA-TTTTTAGAAAATTTAGGG-TCAAAAATGGAATTTTGAAAAATTC-A-A
* ** * * *
669927 GGGTAAAAAGGTAATTTTTGGAAAGTTTGGGGTCAAAAATGGAATTTTGAAAAATTCAA
1 AGGTAAAAATATAATTTTTAGAAAATTTAGGGTCAAAAATGGAATTTTGAAAAATTCAA
* * * *
669986 AGGTAAAAATATAATTTTTAGAAACTTTAGGGTCAAAAATGAAATTTTGAAAAGTTC-G
1 AGGTAAAAATATAATTTTTAGAAAATTTAGGGTCAAAAATGGAATTTTGAAAAATTCAA
* * * * *
670044 AGGATAAAAATATATTTTTTTGAAAAATTCGTGGTCAAAAAGGGAATTTT-AAAAAGTTCAA
1 AGG-TAAAAATATAATTTTTAGAAAATTTAG-GGTCAAAAATGGAATTTTGAAAAA-TTCAA
* * * *
670105 GGGTAAAAATATAATTTTTAAAAAATTTAGGGTCAAAAATAGAATTTTAAAAAATT
1 AGGTAAAAATATAATTTTTAGAAAATTTAGGGTCAAAAATGGAATTTTGAAAAATT
670161 TAGGGGTTCT
Statistics
Matches: 191, Mismatches: 38, Indels: 14
0.79 0.16 0.06
Matches are distributed among these distances:
58 3 0.02
59 93 0.49
60 47 0.25
61 25 0.13
62 13 0.07
63 10 0.05
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.33
Consensus pattern (59 bp):
AGGTAAAAATATAATTTTTAGAAAATTTAGGGTCAAAAATGGAATTTTGAAAAATTCAA
Found at i:670185 original size:13 final size:14
Alignment explanation
Indices: 670167--670197 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
670157 AATTTAGGGG
670167 TTCTAAACCCTT-T
1 TTCTAAACCCTTCT
670180 TTCTAAACCCTTCT
1 TTCTAAACCCTTCT
670194 TTCT
1 TTCT
670198 TTAAAAACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.19, C:0.32, G:0.00, T:0.48
Consensus pattern (14 bp):
TTCTAAACCCTTCT
Found at i:670611 original size:35 final size:36
Alignment explanation
Indices: 670542--670611 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
670532 TATCATTAAT
* * *
670542 ATTAATTATTATTAATATATTTATCATTATTATTAG
1 ATTAATTATTATTAATATATTAATAATTAATATTAG
670578 ATTAA-TATTATTAATAT-TATAATAATTAATATTA
1 ATTAATTATTATTAATATAT-TAATAATTAATATTA
670612 ATATTAATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 1 0.03
35 24 0.80
36 5 0.17
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (36 bp):
ATTAATTATTATTAATATATTAATAATTAATATTAG
Found at i:670624 original size:15 final size:15
Alignment explanation
Indices: 670578--670625 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
670568 TTATTATTAG
*
670578 ATTAATATTATTAAT
1 ATTAATATTAATAAT
*
670593 ATT-ATAATAATTAAT
1 ATTAATATTAA-TAAT
*
670608 ATTAATATTAATGAT
1 ATTAATATTAATAAT
670623 ATT
1 ATT
670626 TACTAATGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 5 0.19
15 16 0.59
16 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTAATATTAATAAT
Found at i:675162 original size:25 final size:23
Alignment explanation
Indices: 675121--675167 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
675111 CCAATTAGGA
675121 AATTATTGTTTAGATTTAATTTT
1 AATTATTGTTTAGATTTAATTTT
*
675144 AATTATTTTTTTAGAATTTAATTT
1 AATTA-TTGTTTAG-ATTTAATTT
675168 GGATCCAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 7 0.33
25 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (23 bp):
AATTATTGTTTAGATTTAATTTT
Found at i:676261 original size:60 final size:59
Alignment explanation
Indices: 676154--676290 Score: 179
Period size: 60 Copynumber: 2.3 Consensus size: 59
676144 GAAAGTTCGG
* *
676154 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAACAATAGAATTTTGGAAAA-TTTAA
1 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATAGAATTTT-GAAAAGTTTAA
* * * *
676213 GGGTAAAATGGTATTTTTTTGGTGAAATCGAGGTTAAAAATATAATTTTGAAAAGTTTAG
1 GGGTAAAATGGTA-ATTTTTGGTGAAATCGAGGTCAAAAATAGAATTTTGAAAAGTTTAA
676273 GGGTCAAAAT-GTAATTTT
1 GGGT-AAAATGGTAATTTT
676291 GGAAAAGTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
59 22 0.32
60 41 0.60
61 5 0.07
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATAGAATTTTGAAAAGTTTAA
Found at i:676298 original size:30 final size:29
Alignment explanation
Indices: 676249--676532 Score: 300
Period size: 30 Copynumber: 9.4 Consensus size: 29
676239 ATCGAGGTTA
*
676249 AAAATATAATTTTGAAAAGTTTAGGGGTC
1 AAAATATAATTTTGAAAAGTTTTGGGGTC
* * *
676278 AAAATGTAATTTTGGAAAAGTTTTGAGGTT
1 AAAATATAATTTT-GAAAAGTTTTGGGGTC
676308 AAAATATAATTTTAGAAAAGTTTTGGGGTC
1 AAAATATAATTTT-GAAAAGTTTTGGGGTC
* * *
676338 AAAATGTAATTTTCAAAAAAAGTTTTGGGGTT
1 AAAATATAATTTT---GAAAAGTTTTGGGGTC
*
676370 AAAATATAATTTTGAAAAAGTTTTAGGGTC
1 AAAATATAATTTTG-AAAAGTTTTGGGGTC
* * *
676400 AAAATGTAATTTTTAGAAAGTTTTAGGGTC
1 AAAATATAATTTTGA-AAAGTTTTGGGGTC
*
676430 AAAATATAATTTTTAGAAAA-TTTTGGGGTT
1 AAAATATAA-TTTT-GAAAAGTTTTGGGGTC
* * *
676460 AAAATCTAATTTTGGAAAAGTTTTAGGGTT
1 AAAATATAATTTT-GAAAAGTTTTGGGGTC
* * *
676490 AAAATGTAATTTTTAGAAAGTTTTGAGGTC
1 AAAATATAATTTTGA-AAAGTTTTGGGGTC
676520 AAAATATAATTTT
1 AAAATATAATTTT
676533 TGGATAGTCT
Statistics
Matches: 216, Mismatches: 30, Indels: 17
0.82 0.11 0.06
Matches are distributed among these distances:
29 23 0.11
30 158 0.73
31 7 0.03
32 28 0.13
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.39
Consensus pattern (29 bp):
AAAATATAATTTTGAAAAGTTTTGGGGTC
Found at i:676306 original size:60 final size:59
Alignment explanation
Indices: 676242--676532 Score: 338
Period size: 60 Copynumber: 4.8 Consensus size: 59
676232 TGGTGAAATC
*
676242 GAGGTTAAAAATATAATTTTGAAAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 GAGGTT-AAAATATAATTTTGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGTTTT
**
676302 GAGGTTAAAATATAATTTTAGAAAAGTTTTGGGGTCAAAATGTAATTTTCAAAAAAAGTTTT
1 GAGGTTAAAATATAATTTT-GAAAAGTTTTGGGGTCAAAATGTAATTTT--GGAAAAGTTTT
* * *
676364 GGGGTTAAAATATAATTTTGAAAAAGTTTTAGGGTCAAAATGTAATTTT-TAGAAAGTTTT
1 GAGGTTAAAATATAATTTTG-AAAAGTTTTGGGGTCAAAATGTAATTTTGGA-AAAGTTTT
* * *
676424 -AGGGTCAAAATATAATTTTTAGAAAA-TTTTGGGGTTAAAATCTAATTTTGGAAAAGTTTT
1 GA-GGTTAAAATATAA-TTTT-GAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGTTTT
* * * *
676484 -AGGGTTAAAATGTAATTTTTAGAAAGTTTTGAGGTCAAAATATAATTTT
1 GA-GGTTAAAATATAATTTTGA-AAAGTTTTGGGGTCAAAATGTAATTTT
676533 TGGATAGTCT
Statistics
Matches: 202, Mismatches: 18, Indels: 22
0.83 0.07 0.09
Matches are distributed among these distances:
58 1 0.00
59 21 0.10
60 115 0.57
61 10 0.05
62 55 0.27
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.39
Consensus pattern (59 bp):
GAGGTTAAAATATAATTTTGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGTTTT
Found at i:676488 original size:90 final size:90
Alignment explanation
Indices: 676249--676533 Score: 391
Period size: 90 Copynumber: 3.2 Consensus size: 90
676239 ATCGAGGTTA
* * *
676249 AAAATATAA-TTTT-GAAAAGTTTAGGGGTCAAAATGTAATTTTGGAAAAGTTTT-GAGGTTAAA
1 AAAATATAATTTTTAGAAAAGTTTTGGGGTTAAAATATAATTTTGGAAAAGTTTTAG-GGTTAAA
*
676311 ATATAA-TTTTAGAAAAGTTTTGGGGTC
65 ATGTAATTTTTAG-AAAGTTTT-GGGTC
* * * * *
676338 AAAATGTAATTTTCAAAAAAAGTTTTGGGGTTAAAATATAATTTTGAAAAAGTTTTAGGGTCAAA
1 AAAATATAATTTT-TAGAAAAGTTTTGGGGTTAAAATATAATTTTGGAAAAGTTTTAGGGTTAAA
676403 ATGTAATTTTTAGAAAGTTTTAGGGTC
65 ATGTAATTTTTAGAAAGTTTT-GGGTC
*
676430 AAAATATAATTTTTAGAAAA-TTTTGGGGTTAAAATCTAATTTTGGAAAAGTTTTAGGGTTAAAA
1 AAAATATAATTTTTAGAAAAGTTTTGGGGTTAAAATATAATTTTGGAAAAGTTTTAGGGTTAAAA
676494 TGTAATTTTTAGAAAGTTTTGAGGTC
66 TGTAATTTTTAGAAAGTTTTG-GGTC
676520 AAAATATAATTTTT
1 AAAATATAATTTTT
676534 GGATAGTCTA
Statistics
Matches: 174, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
89 9 0.05
90 82 0.47
91 5 0.03
92 71 0.41
93 7 0.04
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.39
Consensus pattern (90 bp):
AAAATATAATTTTTAGAAAAGTTTTGGGGTTAAAATATAATTTTGGAAAAGTTTTAGGGTTAAAA
TGTAATTTTTAGAAAGTTTTGGGTC
Found at i:678369 original size:17 final size:17
Alignment explanation
Indices: 678347--678419 Score: 83
Period size: 17 Copynumber: 4.3 Consensus size: 17
678337 GGACATTTTA
* *
678347 TTAAATTTATAATAATT
1 TTAAATTTAAAATAAAT
*
678364 TTAAATTTAAATTAAAT
1 TTAAATTTAAAATAAAT
**
678381 CCAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
678398 TTAATTTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
678415 CTAAA
1 TTAAA
678420 ATGGTTTGGT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 45 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:678395 original size:34 final size:34
Alignment explanation
Indices: 678349--678415 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
678339 ACATTTTATT
* * *
678349 AAATTTATAATAATTTTAAATTTAAATTAAATCC
1 AAATTTAAAATAAATTTAAATTTAAAATAAATCC
*
678383 AAATTTAAAATAAATTTAATTTTAAAATAAATC
1 AAATTTAAAATAAATTTAAATTTAAAATAAATC
678416 TAAAATGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (34 bp):
AAATTTAAAATAAATTTAAATTTAAAATAAATCC
Found at i:681752 original size:29 final size:29
Alignment explanation
Indices: 681677--681952 Score: 283
Period size: 29 Copynumber: 9.4 Consensus size: 29
681667 GAACTTTTCT
**
681677 AAAATTACATTTTGACCC-CGAAACTTCTTT
1 AAAATTACATTTTGACCCTC-AAACTTC-CA
*
681707 AAAATTACATTTT-ACCCTCAAACTTCCC
1 AAAATTACATTTTGACCCTCAAACTTCCA
*
681735 AAAATTACATTTTGACCC-CGAAACTTCCT
1 AAAATTACATTTTGACCCTC-AAACTTCCA
681764 AAAATTACATTTTGA-CCTCAAAACTTCCA
1 AAAATTACATTTTGACCCTC-AAACTTCCA
* *
681793 AAAATTTCATTTTTGCCCCT-AAACTTCCA
1 AAAATTACA-TTTTGACCCTCAAACTTCCA
* * *
681822 AAAATTCCATTTTTAACCCTAAAACTTCCA
1 AAAATTACA-TTTTGACCCTCAAACTTCCA
* **
681852 AAAATTACATTTTTACCCTTGAACTTCCA
1 AAAATTACATTTTGACCCTCAAACTTCCA
* * * *
681881 AAAATTCCATTCTCGACCTTGAAACTTCCA
1 AAAATTACATT-TTGACCCTCAAACTTCCA
** *
681911 AAAATTACATTTTTTCCCTCGAACTTCCA
1 AAAATTACATTTTGACCCTCAAACTTCCA
681940 AAAATTACATTTT
1 AAAATTACATTTT
681953 TGATCTCGGA
Statistics
Matches: 211, Mismatches: 27, Indels: 17
0.83 0.11 0.07
Matches are distributed among these distances:
28 16 0.08
29 133 0.63
30 59 0.28
31 3 0.01
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATTACATTTTGACCCTCAAACTTCCA
Found at i:681855 original size:59 final size:59
Alignment explanation
Indices: 681677--681955 Score: 284
Period size: 59 Copynumber: 4.8 Consensus size: 59
681667 GAACTTTTCT
* ** * *
681677 AAAATTACA-TTTTGACCCCGAAACTTCTTTAAAATTACA-TTTT-ACCCTCAAACTTCCC
1 AAAATTACATTTTTG-CCCCTAAACTTC-CAAAAATTACATTTTTGACCCTAAAACTTCCA
* *
681735 AAAATTACA-TTTTGACCCCGAAACTTCCTAAAATTACA-TTTTGA-CCTCAAAACTTCCA
1 AAAATTACATTTTTG-CCCCTAAACTTCCAAAAATTACATTTTTGACCCT-AAAACTTCCA
* * *
681793 AAAATTTCATTTTTGCCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAAACTTCCA
1 AAAATTACATTTTTGCCCCTAAACTTCCAAAAATTACATTTTTGACCCTAAAACTTCCA
* * * * * * * *
681852 AAAATTACATTTTTACCCTTGAACTTCCAAAAATTCCATTCTCGACCTTGAAACTTCCA
1 AAAATTACATTTTTGCCCCTAAACTTCCAAAAATTACATTTTTGACCCTAAAACTTCCA
* *
681911 AAAATTACATTTTT-TCCCTCGAACTTCCAAAAATTACATTTTTGA
1 AAAATTACATTTTTGCCCCT-AAACTTCCAAAAATTACATTTTTGA
681956 TCTCGGAACT
Statistics
Matches: 193, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
57 17 0.09
58 67 0.35
59 106 0.55
60 3 0.02
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (59 bp):
AAAATTACATTTTTGCCCCTAAACTTCCAAAAATTACATTTTTGACCCTAAAACTTCCA
Found at i:681877 original size:88 final size:88
Alignment explanation
Indices: 681677--681953 Score: 274
Period size: 88 Copynumber: 3.2 Consensus size: 88
681667 GAACTTTTCT
* * * ** * * *
681677 AAAATTACATTTTGACCCCGAAACTTCTTTAAAATTACATT-T-TACCCTCAAACTTCCCAAAAT
1 AAAATTACATTTTTACCTCAAAACTTC-CAAAAATTCCATTCTCGACCCTCAAACTTCCAAAAAT
* ** *
681740 TACATTTTGACCCCGAAACTTCCT
65 TACATTTTTACCCTAAAACTTCCA
* * * * *
681764 AAAATTACATTTTGACCTCAAAACTTCCAAAAATTTCATTTTTGCCCCT-AAACTTCCAAAAATT
1 AAAATTACATTTTTACCTCAAAACTTCCAAAAATTCCATTCTCGACCCTCAAACTTCCAAAAATT
*
681828 CCATTTTTAACCCTAAAACTTCCA
66 ACATTTTT-ACCCTAAAACTTCCA
** * *
681852 AAAATTACATTTTTACC-CTTGAACTTCCAAAAATTCCATTCTCGACCTTGAAACTTCCAAAAAT
1 AAAATTACATTTTTACCTC-AAAACTTCCAAAAATTCCATTCTCGACCCTCAAACTTCCAAAAAT
* **
681916 TACATTTTTTCCCTCGAACTTCCA
65 TACATTTTTACCCTAAAACTTCCA
681940 AAAATTACATTTTT
1 AAAATTACATTTTT
681954 GATCTCGGAA
Statistics
Matches: 160, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
86 10 0.06
87 47 0.29
88 81 0.51
89 22 0.14
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (88 bp):
AAAATTACATTTTTACCTCAAAACTTCCAAAAATTCCATTCTCGACCCTCAAACTTCCAAAAATT
ACATTTTTACCCTAAAACTTCCA
Found at i:682130 original size:87 final size:87
Alignment explanation
Indices: 682016--682207 Score: 276
Period size: 87 Copynumber: 2.2 Consensus size: 87
682006 AATTTTTCCA
* *
682016 AAAATTACCATTTTACCCTCGAACGTCTAAAATGTCATTTTTAACCCCAAATTTTTCCAAAATTA
1 AAAATTACCATTTTACCCTCGAACGTCTAAAATGTCATTTTTAACCCCAAATTTTCCCAAAAGTA
*
682081 CCATTTTGCCCCCGAGAGTCCC
66 CCATTTTACCCCCGAGAGTCCC
* * * **
682103 AAAATTACCATCTTACCCTCGGACGTCTAAAATGTCATTTTTAACTCTGAATTTTCCCAAAAGTA
1 AAAATTACCATTTTACCCTCGAACGTCTAAAATGTCATTTTTAACCCCAAATTTTCCCAAAAGTA
* * **
682168 TCATTTTACCCTCGAGAGTGTC
66 CCATTTTACCCCCGAGAGTCCC
682190 AAAATTACCATTTTACCC
1 AAAATTACCATTTTACCC
682208 CTGGGTATCC
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 92 1.00
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (87 bp):
AAAATTACCATTTTACCCTCGAACGTCTAAAATGTCATTTTTAACCCCAAATTTTCCCAAAAGTA
CCATTTTACCCCCGAGAGTCCC
Found at i:685894 original size:21 final size:20
Alignment explanation
Indices: 685870--685968 Score: 74
Period size: 21 Copynumber: 4.8 Consensus size: 20
685860 TAACTATTTT
* *
685870 AATAATAGTAATAAATGTTCC
1 AATAATAATAATAAATGTT-A
* *
685891 AATAATAATAATAAGTGCTTT
1 AATAATAATAATAAATG-TTA
*
685912 AATAATATTAATAAATGTTTA
1 AATAATAATAATAAATG-TTA
** *
685933 AATAATAATGTTAATAT-TTT
1 AATAATAATAATAA-ATGTTA
685953 AATAATAAATAATAAA
1 AATAAT-AATAATAAA
685969 AAAGGGAACA
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
20 9 0.15
21 49 0.79
22 4 0.06
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (20 bp):
AATAATAATAATAAATGTTA
Found at i:685966 original size:42 final size:41
Alignment explanation
Indices: 685849--685968 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 41
685839 ATTAATAATA
*
685849 TTAAATAAT-A-GTAACTATTTTAATAATAGTAATAAATGT
1 TTAAATAATAATGTAACTATTTTAATAATAATAATAAATGT
** * * ** *
685888 TCCAATAATAATAATAAGTGCTTTAATAATATTAATAAATGT
1 TTAAATAATAAT-GTAACTATTTTAATAATAATAATAAATGT
685930 TTAAATAATAATGTTAA-TATTTTAATAATAAATAATAAA
1 TTAAATAATAATG-TAACTATTTTAATAAT-AATAATAAA
685969 AAAGGGAACA
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
39 7 0.11
40 1 0.02
41 10 0.16
42 45 0.71
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (41 bp):
TTAAATAATAATGTAACTATTTTAATAATAATAATAAATGT
Found at i:687170 original size:29 final size:28
Alignment explanation
Indices: 687138--687288 Score: 85
Period size: 29 Copynumber: 5.1 Consensus size: 28
687128 CTAAACTATG
687138 CAAAAATTACATTTTACCCCCAAACTTTC
1 CAAAAATTACATTTTACCCCCAAA-TTTC
* * * *
687167 CAAAATTTTA-TTTTTAACCCC-GATTTCAC
1 CAAAA-ATTACATTTTACCCCCAAATTT--C
* *
687196 CAAAAATTACCATTTCACCCCTAAACTTTC
1 CAAAAATTA-CATTTTACCCCCAAA-TTTC
* * *
687226 C-AAAATTTCATTTTTAACCCC-TATTTCAC
1 CAAAAATTACA-TTTTACCCCCAAATTT--C
*
687255 CAAAAATTACCATTTTACCCCTAAATTTTC
1 CAAAAATTA-CATTTTACCCCCAAA-TTTC
687285 CAAA
1 CAAA
687289 TTCTATTTTT
Statistics
Matches: 89, Mismatches: 19, Indels: 27
0.66 0.14 0.20
Matches are distributed among these distances:
27 6 0.07
28 7 0.08
29 35 0.39
30 31 0.35
31 4 0.04
32 6 0.07
ACGTcount: A:0.36, C:0.28, G:0.01, T:0.35
Consensus pattern (28 bp):
CAAAAATTACATTTTACCCCCAAATTTC
Found at i:687222 original size:59 final size:59
Alignment explanation
Indices: 687138--687302 Score: 262
Period size: 59 Copynumber: 2.8 Consensus size: 59
687128 CTAAACTATG
*
687138 CAAAAATTA-CATTTTACCCCCAAACTTTCCAAAATTTTATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTTTATTTTTAACCCCGATTTCAC
* * *
687196 CAAAAATTACCATTTCACCCCTAAACTTTCCAAAATTTCATTTTTAACCCCTATTTCAC
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTTTATTTTTAACCCCGATTTCAC
* *
687255 CAAAAATTACCATTTTACCCCTAAATTTTCC-AAATTCTATTTTTAACC
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTTTATTTTTAACC
687303 TTTCCAAATT
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
58 24 0.24
59 74 0.76
ACGTcount: A:0.35, C:0.28, G:0.01, T:0.37
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTTTATTTTTAACCCCGATTTCAC
Found at i:687229 original size:30 final size:29
Alignment explanation
Indices: 687195--687288 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 29
687185 CCCGATTTCA
*
687195 CCAAAAATTACCATTTCACCCCTAAACTTT
1 CCAAAAATTACCATTTAACCCCTAAA-TTT
*
687225 CC-AAAATT-TCATTTTTAACCCCT--ATTT
1 CCAAAAATTACCA--TTTAACCCCTAAATTT
*
687252 CACCAAAAATTACCATTTTACCCCTAAATTTT
1 --CCAAAAATTACCATTTAACCCCTAAA-TTT
687284 CCAAA
1 CCAAA
687289 TTCTATTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 18
0.70 0.05 0.25
Matches are distributed among these distances:
27 3 0.06
28 3 0.06
29 17 0.33
30 22 0.43
31 3 0.06
32 3 0.06
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.34
Consensus pattern (29 bp):
CCAAAAATTACCATTTAACCCCTAAATTT
Found at i:687309 original size:22 final size:22
Alignment explanation
Indices: 687281--687324 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
687271 ACCCCTAAAT
*
687281 TTTCCAAATTCTATTTTTAACC
1 TTTCCAAATTCCATTTTTAACC
687303 TTTCCAAATTCCATTTTTAACC
1 TTTCCAAATTCCATTTTTAACC
687325 CTAATTTCAC
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:0.27, C:0.25, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTCCAAATTCCATTTTTAACC
Found at i:687379 original size:80 final size:81
Alignment explanation
Indices: 687221--687382 Score: 222
Period size: 80 Copynumber: 2.0 Consensus size: 81
687211 CACCCCTAAA
* * **
687221 CTTTCCAAAATTTCATTTTTAACCCCTATTTCACCAAAAATTACCATTTTACCCCTAAATTTTCC
1 CTTTCCAAAATTCCATTTTTAACCCCTATTTCACCAAAAATTACCATTTTACCCCCAAACCTTCC
* *
687286 AAATTCTATTTTTAAC
66 AAATCCCATTTTTAAC
*
687302 CTTTCC-AAATTCCATTTTTAA-CCCTAATTTCACCAAAAATTACCATTTTACCCCCGAACCTTC
1 CTTTCCAAAATTCCATTTTTAACCCCT-ATTTCACCAAAAATTACCATTTTACCCCCAAACCTTC
687365 CAAAATCCCA-TTTTAAC
65 C-AAATCCCATTTTTAAC
687382 C
1 C
687383 CCAAATTTTC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
79 4 0.06
80 56 0.78
81 12 0.17
ACGTcount: A:0.32, C:0.30, G:0.01, T:0.38
Consensus pattern (81 bp):
CTTTCCAAAATTCCATTTTTAACCCCTATTTCACCAAAAATTACCATTTTACCCCCAAACCTTCC
AAATCCCATTTTTAAC
Found at i:687436 original size:139 final size:139
Alignment explanation
Indices: 687162--687436 Score: 292
Period size: 139 Copynumber: 2.0 Consensus size: 139
687152 TACCCCCAAA
** * * *
687162 CTTTCCAAAATTTTATTTTTAACCCCGATTTCACCAAAAATTACCATTTCACCCCTAAACTTTCC
1 CTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTCACCCCCAAACCTTCC
** * * * * *
687227 AAAATTTCATTTTTAACCCCTATTTCACCAAAAATTACCATTTTACCCCTAAATTTTCCAAATTC
66 AAAATCCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCCGAAA-TGTCAAAATTA
687292 TATTTTTAAC
130 TATTTTTAAC
* * *
687302 CTTTCC-AAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCATTTTACCCCCGAACCTTCC
1 CTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTCACCCCCAAACCTTCC
* *
687366 AAAATCCCA-TTTTAACCCCAAATTTTC-CC-GAAATTA-CATTTTTACCCTCGAGA-GTCAAAA
66 AAAATCCCATTTTTAACCCC-AA-TTTCACCAAAAATTACCA-TTTTACCC-CGAAATGTC-AAA
687426 ATTATCATTTT
126 ATTAT-ATTTT
687437 GCCCCCGGGT
Statistics
Matches: 112, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
137 4 0.04
138 30 0.27
139 68 0.61
140 10 0.09
ACGTcount: A:0.33, C:0.28, G:0.02, T:0.37
Consensus pattern (139 bp):
CTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTCACCCCCAAACCTTCC
AAAATCCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCCGAAATGTCAAAATTAT
ATTTTTAAC
Found at i:701195 original size:29 final size:30
Alignment explanation
Indices: 701163--701219 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
701153 AAAATTATAT
*
701163 TTTAGCCCTTT-AAAATGATAAAAATTTGA
1 TTTAACCCTTTAAAAATGATAAAAATTTGA
* * *
701192 TTTAATCTTTTAAAAATTATAAAAATTT
1 TTTAACCCTTTAAAAATGATAAAAATTT
701220 AAGCTCTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 8 0.35
30 15 0.65
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (30 bp):
TTTAACCCTTTAAAAATGATAAAAATTTGA
Found at i:701689 original size:23 final size:22
Alignment explanation
Indices: 701663--701706 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
701653 AGGTGGAAGT
701663 TAAAAGTGTAATTTTTATAATAA
1 TAAAAGTGTAATTTTTA-AATAA
* *
701686 TAAAATTTTAATTTTTAAATA
1 TAAAAGTGTAATTTTTAAATA
701707 GAGGTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
TAAAAGTGTAATTTTTAAATAA
Found at i:709102 original size:23 final size:24
Alignment explanation
Indices: 709076--709122 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
709066 TTCAAAGTTC
*
709076 AATTTAATA-TTCAAATTTTTTTA
1 AATTCAATACTTCAAATTTTTTTA
* *
709099 AATTCGATACTTGAAATTTTTTTA
1 AATTCAATACTTCAAATTTTTTTA
709123 TCCTAATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.53
Consensus pattern (24 bp):
AATTCAATACTTCAAATTTTTTTA
Found at i:713533 original size:20 final size:18
Alignment explanation
Indices: 713488--713534 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
713478 TATTTATAAA
*
713488 TATTTTATATTTTGTATG
1 TATTTTATATTTTATATG
713506 TATTTTATAATTTTATATG
1 TATTTTAT-ATTTTATATG
713525 TATTTT-TATT
1 TATTTTATATT
713535 AAAAACAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 3 0.11
18 9 0.33
19 15 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (18 bp):
TATTTTATATTTTATATG
Found at i:716353 original size:30 final size:30
Alignment explanation
Indices: 716161--716502 Score: 189
Period size: 30 Copynumber: 11.6 Consensus size: 30
716151 AGAGAATTTA
** *
716161 GGGTCAAAATGTAATTTTAAAAAAAATTT-G
1 GGGTCAAAATGTAATTTT-GGAAAAGTTTGG
* * * * *
716191 AGGTCAAGATGTAATTTTAAGAACA-TTTAG
1 GGGTCAAAATGTAATTTT-GGAAAAGTTTGG
* * * * *
716221 GGATCAAAATCTGACTTTGGGAAAGTTTGG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTGG
* * *
716251 AGGTCAAAATGTGATTTTTGGGAAAGTTT-G
1 GGGTCAAAATGT-AATTTTGGAAAAGTTTGG
* * * *
716281 GAGTCAAAATATAATTTTGGGAAAGTTTAG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTGG
* *
716311 GTGT-----TATAATTTTGGAAAAGTTTGG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTGG
*
716336 GGGTCGAAATGTAATTTTGGAAAAGTTTGG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTGG
* * *
716366 GGGTCGAAATGTAATTTTGGAAAATTTTAG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTGG
* * ***
716396 GGGTCAAAATGCAATTTTGGAAGAGTTCAA
1 GGGTCAAAATGTAATTTTGGAAAAGTTTGG
* * * ** *
716426 GGG-CTATAGTTTGTTTTTGGAGAAGTTTGG
1 GGGTC-AAAATGTAATTTTGGAAAAGTTTGG
* * * ***
716456 GAGTCAAAATGCAATTTTGAAAAAGTTCAA
1 GGGTCAAAATGTAATTTTGGAAAAGTTTGG
*
716486 GGGTCAAAATGTGATTT
1 GGGTCAAAATGTAATTT
716503 CTAAAAAGTT
Statistics
Matches: 238, Mismatches: 63, Indels: 22
0.74 0.20 0.07
Matches are distributed among these distances:
25 22 0.09
29 22 0.09
30 180 0.76
31 14 0.06
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (30 bp):
GGGTCAAAATGTAATTTTGGAAAAGTTTGG
Found at i:716353 original size:85 final size:85
Alignment explanation
Indices: 716236--716396 Score: 216
Period size: 85 Copynumber: 1.9 Consensus size: 85
716226 AAAATCTGAC
* * *
716236 TTTGGGAAAGTTTGGAGGTCAAAATGTGATTTTTGGGAAAGTTT-GGAGTCAAAATATAATTTTG
1 TTTGGAAAAGTTTGGAGGTCAAAATGT-AATTTTGGAAAAGTTTGGGAGTCAAAATATAATTTTG
*
716300 GGAAAGTTTAGGTGTTATAAT
65 GAAAAGTTTAGGTGTTATAAT
* * * * *
716321 TTTGGAAAAGTTTGGGGGTCGAAATGTAATTTTGGAAAAGTTTGGGGGTCGAAATGTAATTTTGG
1 TTTGGAAAAGTTTGGAGGTCAAAATGTAATTTTGGAAAAGTTTGGGAGTCAAAATATAATTTTGG
*
716386 AAAATTTTAGG
66 AAAAGTTTAGG
716397 GGTCAAAATG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
84 14 0.22
85 51 0.78
ACGTcount: A:0.31, C:0.02, G:0.30, T:0.37
Consensus pattern (85 bp):
TTTGGAAAAGTTTGGAGGTCAAAATGTAATTTTGGAAAAGTTTGGGAGTCAAAATATAATTTTGG
AAAAGTTTAGGTGTTATAAT
Found at i:716533 original size:120 final size:120
Alignment explanation
Indices: 716320--716545 Score: 256
Period size: 120 Copynumber: 1.9 Consensus size: 120
716310 GGTGTTATAA
* * * * *** *
716320 TTTTGGAAAAGTTTGGGGGTCGAAATGTAATTTTGGAAAAGTTTGGGGGTCGAAATGTAATTTTG
1 TTTTGGAAAAGTTTGGGAGTCAAAATGCAATTTTGAAAAAGTTCAAGGGTCAAAATGTAATTTTG
* * ** * *
716385 GAAAATTTTAGGGGTCAAAATGCAATTTTGGAAGAGTTCAAGGGCTATAGTTTGT
66 AAAAAGTTTAGGGACCAAAATACAATTTTGGAAAAGTTCAAGGGCTATAGTTTGT
* *
716440 TTTTGGAGAAGTTTGGGAGTCAAAATGCAATTTTGAAAAAGTTCAAGGGTCAAAATGTGATTTCT
1 TTTTGGAAAAGTTTGGGAGTCAAAATGCAATTTTGAAAAAGTTCAAGGGTCAAAATGTAATTT-T
* ** *
716505 -AAAAAGTTTAGTGACCAAAATATGATTTTTGAAAAGTTCAA
65 GAAAAAGTTTAGGGACCAAAATACAATTTTGGAAAAGTTCAA
716546 AGACCTACTG
Statistics
Matches: 85, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
120 84 0.99
121 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (120 bp):
TTTTGGAAAAGTTTGGGAGTCAAAATGCAATTTTGAAAAAGTTCAAGGGTCAAAATGTAATTTTG
AAAAAGTTTAGGGACCAAAATACAATTTTGGAAAAGTTCAAGGGCTATAGTTTGT
Found at i:717308 original size:16 final size:16
Alignment explanation
Indices: 717289--717319 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
717279 TTTCTTTGCT
717289 ATTTTTTTTTGTATTG
1 ATTTTTTTTTGTATTG
*
717305 ATTTTTTTTTTTATT
1 ATTTTTTTTTGTATT
717320 TCAAAATGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (16 bp):
ATTTTTTTTTGTATTG
Found at i:717579 original size:26 final size:25
Alignment explanation
Indices: 717550--717611 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 25
717540 AAACATCTTT
*
717550 TTTTTTTACAAATTTTAATCA-TTTTA
1 TTTTTTTACAAA-ATTAAT-ATTTTTA
717576 TTTTTTT-CATAAATTAATATTTTTA
1 TTTTTTTACA-AAATTAATATTTTTA
*
717601 TTTTTGTACAA
1 TTTTTTTACAA
717612 CCAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
24 1 0.03
25 19 0.61
26 11 0.35
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTTTTTACAAAATTAATATTTTTA
Found at i:721288 original size:19 final size:19
Alignment explanation
Indices: 721264--721309 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
721254 TTTATAAATA
*
721264 ATTTTATATTTTTGTATGC
1 ATTTTATAATTTTGTATGC
*
721283 ATTTTATAATTTTGTATGT
1 ATTTTATAATTTTGTATGC
721302 ATTTTATA
1 ATTTTATA
721310 GAAAATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (19 bp):
ATTTTATAATTTTGTATGC
Found at i:725186 original size:6 final size:6
Alignment explanation
Indices: 725175--725205 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
725165 AACTCTCCAT
725175 CTACAA CTACAA CTACAA CTACAA CTACAA C
1 CTACAA CTACAA CTACAA CTACAA CTACAA C
725206 AAACTCTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (6 bp):
CTACAA
Found at i:726798 original size:22 final size:22
Alignment explanation
Indices: 726771--726826 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
726761 CTTCTTCTTT
726771 TGTTCTTTATTTTTCATTTTTA
1 TGTTCTTTATTTTTCATTTTTA
*
726793 TGTTCTTTATTTTTCATTTTTC
1 TGTTCTTTATTTTTCATTTTTA
726815 TGTTCTTTATTT
1 TGTTCTTTATTT
726827 CAAAACCCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.11, C:0.11, G:0.05, T:0.73
Consensus pattern (22 bp):
TGTTCTTTATTTTTCATTTTTA
Found at i:726928 original size:22 final size:22
Alignment explanation
Indices: 726903--726945 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
726893 TAACTGTTTC
726903 CCTT-TCACCTCTTATTAAAAAT
1 CCTTGTCACCTCTT-TTAAAAAT
**
726925 CCTTGTTTCCTCTTTTAAAAA
1 CCTTGTCACCTCTTTTAAAAA
726946 ACTTTTTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.28, C:0.26, G:0.02, T:0.44
Consensus pattern (22 bp):
CCTTGTCACCTCTTTTAAAAAT
Found at i:727955 original size:6 final size:6
Alignment explanation
Indices: 727931--728035 Score: 72
Period size: 6 Copynumber: 17.0 Consensus size: 6
727921 GACATTGGAC
* * *
727931 TTTAAA TTTTTAA TATTAAA TTTAATA TTTTAA TCTT-TA TTTAAA TTTAAA
1 TTTAAA -TTTAAA T-TTAAA TTTAA-A TTTAAA T-TTAAA TTTAAA TTTAAA
* * * *
727982 TTCAAA -TTAAA TTTAAATA TTTAAT TTTAAA TTTAAA -ATAAA TCTAAA
1 TTTAAA TTTAAA TTT-AA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
728030 TTTAAA
1 TTTAAA
728036 CAAATTTAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
5 10 0.13
6 43 0.55
7 21 0.27
8 4 0.05
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:728003 original size:31 final size:31
Alignment explanation
Indices: 727968--728030 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
727958 TTTTAATCTT
* *
727968 TATTTAAATTTAAATTCAAATTAAATTTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
* *
727999 TATTTAATTTTAAATTTAAAATAAATCTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
728030 T
1 T
728031 TTAAACAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (31 bp):
TATTTAAATTTAAATTCAAAATAAATCTAAA
Found at i:728031 original size:42 final size:42
Alignment explanation
Indices: 727945--728024 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
727935 AATTTTTAAT
*
727945 ATTAAATTTAATATTTTAATCTTTATTTAAATTTAAATTCAA
1 ATTAAATTTAATATTTTAATCTTTATTTAAATATAAATTCAA
727987 ATTAAATTTAA-ATATTTAAT-TTTAAATTTAAA-ATAAAT
1 ATTAAATTTAATAT-TTTAATCTTT--ATTTAAATATAAAT
728025 CTAAATTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
41 5 0.15
42 22 0.65
43 7 0.21
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (42 bp):
ATTAAATTTAATATTTTAATCTTTATTTAAATATAAATTCAA
Found at i:736301 original size:18 final size:17
Alignment explanation
Indices: 736278--736337 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
736268 GGTCCAACAG
*
736278 AATTTAAAATTATTTTTA
1 AATTTAAAATTA-TATTA
**
736296 AATTTAAGTTTATATTA
1 AATTTAAAATTATATTA
736313 AATTT-AAATCTAT-TTA
1 AATTTAAAAT-TATATTA
736329 GAATTTAAA
1 -AATTTAAA
736338 TTTTTACTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 5 0.15
17 17 0.50
18 12 0.35
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (17 bp):
AATTTAAAATTATATTA
Found at i:736333 original size:17 final size:16
Alignment explanation
Indices: 736292--736338 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
736282 TAAAATTATT
* *
736292 TTTAAATTTAAGTTTA
1 TTTAAATTTAAATCTA
736308 TATTAAATTTAAATCTA
1 T-TTAAATTTAAATCTA
736325 TTTAGAATTTAAAT
1 TTTA-AATTTAAAT
736339 TTTTACTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 4 0.15
17 23 0.85
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (16 bp):
TTTAAATTTAAATCTA
Found at i:738193 original size:30 final size:29
Alignment explanation
Indices: 738159--738519 Score: 367
Period size: 30 Copynumber: 12.1 Consensus size: 29
738149 CTCAGGTGGT
* *
738159 CCCTAAACTATTTAAAAATTACATTTTAAC
1 CCCTAAACT-TTCAAAAATTACATTTTTAC
*
738189 CCCTAAACTTTCTAAAAATTACATTTTAAC
1 CCCTAAACTTTC-AAAAATTACATTTTTAC
* *
738219 CCCTAAACTTTTCAAAAATTATATTTTGAC
1 CCCTAAAC-TTTCAAAAATTACATTTTTAC
738249 TCCC-AAACTTTCCAAAAATTAC-TATTTTAC
1 -CCCTAAACTTT-CAAAAATTACAT-TTTTAC
*
738279 CTCTAAAC-TTCAAAAAATTACATTTTTTAC
1 CCCTAAACTTTC-AAAAATTACA-TTTTTAC
* * * *
738309 CTCAAAACTTCCAGAAATTACATTTTTAC
1 CCCTAAACTTTCAAAAATTACATTTTTAC
*
738338 CCTTAAACTTTCAAAAA-TACCATTTTTGA-
1 CCCTAAACTTTCAAAAATTA-CATTTTT-AC
*
738367 CCCTAAAACTTCCAAAAATTACATTTTTAC
1 CCCT-AAACTTTCAAAAATTACATTTTTAC
738397 CCCTAAAACTTTCAAAAATTACATTTTTAC
1 CCCT-AAACTTTCAAAAATTACATTTTTAC
*
738427 CCCTAAAACTTTTAAAAATTACATTTTTAC
1 CCCT-AAACTTTCAAAAATTACATTTTTAC
* *
738457 CCTTAAACTTTTC-AAAATTTCATTTTTTGA-
1 CCCTAAAC-TTTCAAAAATTACA-TTTTT-AC
* *
738487 CCTTTAACTTTCCAAAAATTACATTTTTAC
1 CCCTAAACTTT-CAAAAATTACATTTTTAC
738517 CCC
1 CCC
738520 CGTATCTTCC
Statistics
Matches: 286, Mismatches: 24, Indels: 42
0.81 0.07 0.12
Matches are distributed among these distances:
28 3 0.01
29 65 0.23
30 197 0.69
31 21 0.07
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.39
Consensus pattern (29 bp):
CCCTAAACTTTCAAAAATTACATTTTTAC
Found at i:738257 original size:60 final size:58
Alignment explanation
Indices: 738159--738694 Score: 371
Period size: 59 Copynumber: 9.0 Consensus size: 58
738149 CTCAGGTGGT
* * * *
738159 CCCTAAACTATTTAAAAATTACATTTTAACCCCTAAACTTTCTAAAAATTACATTTTAAC
1 CCCTAAACT-TTCAAAAATTACATTTTGACCCC-AAACTTTCCAAAAATTACATTTTTAC
*
738219 CCCTAAACTTTTCAAAAATTATATTTTGACTCCCAAACTTTCCAAAAATTAC-TATTTTAC
1 CCCTAAAC-TTTCAAAAATTACATTTTGAC-CCCAAACTTTCCAAAAATTACAT-TTTTAC
* * * *
738279 CTCTAAAC-TTCAAAAAATTACATTTTTTACCTCAAAAC-TTCCAGAAATTACATTTTTAC
1 CCCTAAACTTTC-AAAAATTACA-TTTTGACC-CCAAACTTTCCAAAAATTACATTTTTAC
* *
738338 CCTTAAACTTTCAAAAA-TACCATTTTTGACCCTAAAAC-TTCCAAAAATTACATTTTTAC
1 CCCTAAACTTTCAAAAATTA-CA-TTTTGACCC-CAAACTTTCCAAAAATTACATTTTTAC
* *
738397 CCCTAAAACTTTCAAAAATTACATTTTTACCCCTAAAACTTT-TAAAAATTACATTTTTAC
1 CCCT-AAACTTTCAAAAATTACATTTTGACCCC--AAACTTTCCAAAAATTACATTTTTAC
* * ***
738457 CCTTAAACTTTTC-AAAATTTCATTTTTTGACCTTTAACTTTCCAAAAATTACATTTTTACC
1 CCCTAAAC-TTTCAAAAATTACA--TTTTGACCCCAAACTTTCCAAAAATTACATTTTTA-C
* * ** * ** * *
738518 CCCGT-ATC-TTCCAAAATCCCATTGTTAACGTCAAACCTTCCGAAAATTACCATTTTTAC
1 CCC-TAAACTTTCAAAAATTACATT-TTGACCCCAAACTTTCCAAAAATTA-CATTTTTAC
* * * *** *
738577 CCCTAGA-TGTCCAAAA-TATCATTTTTGACCTTGAACTTTCCAAAAATTACATTTTT-G
1 CCCTAAACTTTCAAAAATTA-CA-TTTTGACCCCAAACTTTCCAAAAATTACATTTTTAC
* * ** * * *
738634 CCCTGAA-TCTTCCAAAATCCCATTTTTGACCCCGAACCTTCTAAAAATTACCA-TTTTAC
1 CCCTAAACT-TTCAAAAATTACA-TTTTGACCCCAAACTTTCCAAAAATTA-CATTTTTAC
738693 CC
1 CC
738695 TTAGATGTCC
Statistics
Matches: 387, Mismatches: 57, Indels: 65
0.76 0.11 0.13
Matches are distributed among these distances:
57 6 0.02
58 53 0.14
59 162 0.42
60 145 0.37
61 20 0.05
62 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.37
Consensus pattern (58 bp):
CCCTAAACTTTCAAAAATTACATTTTGACCCCAAACTTTCCAAAAATTACATTTTTAC
Found at i:738346 original size:89 final size:88
Alignment explanation
Indices: 738159--738518 Score: 335
Period size: 89 Copynumber: 4.0 Consensus size: 88
738149 CTCAGGTGGT
* *
738159 CCCT-AAACTATTTAAAAATTACA-TTTTAACCCCTAAACTTTCTAAAAATTACATTTTAACCCC
1 CCCTAAAACT-TTCAAAAATTACATTTTTAA-CCCTAAAC-TTCTAAAAATTACATTTTTACCCC
* * * *
738222 TAAACTTTTCAAAAATTATATTTTGA
63 AAAACTTTCCAAAAATTACATTTTTA
* *
738248 CTCC-CAAACTTTCCAAAAATTAC-TATTTT-ACCTCTAAACTTCAAAAAATTACATTTTTTACC
1 C-CCTAAAACTTT-CAAAAATTACAT-TTTTAACC-CTAAACTTCTAAAAATTACA-TTTTTACC
* *
738310 TCAAAAC-TTCCAGAAATTACATTTTTA
61 CCAAAACTTTCCAAAAATTACATTTTTA
* * *
738337 CCCTTAAACTTTCAAAAA-TACCATTTTTGACCCTAAAACTTCCAAAAATTACATTTTTACCCCT
1 CCCTAAAACTTTCAAAAATTA-CATTTTTAACCCT-AAACTTCTAAAAATTACATTTTTACCCC-
738401 AAAACTTT-CAAAAATTACATTTTTA
63 AAAACTTTCCAAAAATTACATTTTTA
* * * *
738426 CCCCTAAAACTTTTAAAAATTACATTTTT-ACCCTTAAACTTTTCAAAATTTCATTTTTTGA-CC
1 -CCCTAAAACTTTCAAAAATTACATTTTTAACCC-TAAACTTCTAAAAATTACA-TTTTT-ACCC
***
738489 TTTAACTTTCCAAAAATTACATTTTTA
62 CAAAACTTTCCAAAAATTACATTTTTA
738516 CCC
1 CCC
738519 CCGTATCTTC
Statistics
Matches: 229, Mismatches: 22, Indels: 40
0.79 0.08 0.14
Matches are distributed among these distances:
87 2 0.01
88 24 0.10
89 111 0.48
90 85 0.37
91 7 0.03
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.39
Consensus pattern (88 bp):
CCCTAAAACTTTCAAAAATTACATTTTTAACCCTAAACTTCTAAAAATTACATTTTTACCCCAAA
ACTTTCCAAAAATTACATTTTTA
Found at i:738630 original size:30 final size:30
Alignment explanation
Indices: 738596--738731 Score: 99
Period size: 29 Copynumber: 4.7 Consensus size: 30
738586 TCCAAAATAT
*
738596 CATTTTTGACCTTGAACTTTCCAAAAATTA
1 CATTTTTGACCCTGAACTTTCCAAAAATTA
**
738626 CATTTTTG-CCCTGAA-TCTTCC-AAAATCC
1 CATTTTTGACCCTGAACT-TTCCAAAAATTA
* * *
738654 CATTTTTGACCCCGAACCTTCTAAAAATTA
1 CATTTTTGACCCTGAACTTTCCAAAAATTA
* *
738684 CCA-TTTT-ACCCTTAGA-TGTCC-AAAA-TA
1 -CATTTTTGACCCTGA-ACTTTCCAAAAATTA
*
738711 CCATTTTTGACCCTAAACTTT
1 -CATTTTTGACCCTGAACTTT
738732 TAAAAAATCA
Statistics
Matches: 82, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
27 5 0.06
28 23 0.28
29 34 0.41
30 18 0.22
31 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (30 bp):
CATTTTTGACCCTGAACTTTCCAAAAATTA
Found at i:738724 original size:29 final size:30
Alignment explanation
Indices: 738560--738724 Score: 95
Period size: 28 Copynumber: 5.7 Consensus size: 30
738550 AAACCTTCCG
*
738560 AAAATTACCATTTTT-ACCCCTAGATGTCC
1 AAAATTACCATTTTTGACCCTTAGATGTCC
* *
738589 AAAA-TATCATTTTTGA-CCTT-GAACTTTCC
1 AAAATTACCATTTTTGACCCTTAG-A-TGTCC
* *
738618 AAAAATTA-CATTTTTG-CCCTGA-ATCTTCC
1 -AAAATTACCATTTTTGACCCTTAGAT-GTCC
* ** *
738647 AAAA-TCCCATTTTTGACCCCGA-ACCT-TCTA
1 AAAATTACCATTTTTGACCCTTAGA--TGTC-C
738677 AAAATTACCA-TTTT-ACCCTTAGATGTCC
1 AAAATTACCATTTTTGACCCTTAGATGTCC
738705 AAAA-TACCATTTTTGACCCT
1 AAAATTACCATTTTTGACCCT
738725 AAACTTTTAA
Statistics
Matches: 107, Mismatches: 11, Indels: 36
0.69 0.07 0.23
Matches are distributed among these distances:
27 7 0.07
28 35 0.33
29 34 0.32
30 24 0.22
31 7 0.07
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.36
Consensus pattern (30 bp):
AAAATTACCATTTTTGACCCTTAGATGTCC
Found at i:738737 original size:29 final size:28
Alignment explanation
Indices: 738329--738806 Score: 110
Period size: 30 Copynumber: 16.2 Consensus size: 28
738319 CCAGAAATTA
738329 CATTTTT-ACCCTTAAACTTTCAAAAATAC
1 CATTTTTGACCC-TAAA-TTTCAAAAATAC
*
738358 CATTTTTGACCCTAAAACTTCCAAAAATTA-
1 CATTTTTGACCCT-AAA-TTTCAAAAA-TAC
738388 CATTTTT-ACCCCTAAAACTTTCAAAAATTA-
1 CATTTTTGA-CCCT-AAA-TTTCAAAAA-TAC
*
738418 CATTTTT-ACCCCTAAAACTTTTAAAAATTA-
1 CATTTTTGA-CCCT-AAA-TTTCAAAAA-TAC
**
738448 CATTTTT-ACCCTTAAACTTTTC-AAAATTT
1 CATTTTTGACCC-TAAA--TTTCAAAAATAC
* *
738477 CATTTTTTGACCTTTAACTTTCCAAAAATTA-
1 CA-TTTTTGACC-CTAAATTT-CAAAAA-TAC
*** * *
738508 CATTTTT-ACCCCCGTATCTTCCAAAATCC
1 CATTTTTGA-CCCTAAAT-TTCAAAAATAC
* * * * *
738537 CATTGTT-AACGTCAAACCTTCCGAAAATTAC
1 CATTTTTGACCCT-AAA--TTTC-AAAAATAC
* * * *
738568 CATTTTT-ACCCCTAGATGTCCAAAATAT
1 CATTTTTGA-CCCTAAATTTCAAAAATAC
* *
738596 CATTTTTGACCTTGAACTTTCCAAAAATTA-
1 CATTTTTGACCCT-AAATTT-CAAAAA-TAC
* * *
738626 CATTTTTG-CCCTGAATCTTCCAAAATCC
1 CATTTTTGACCCTAAAT-TTCAAAAATAC
* **
738654 CATTTTTGACCCCGAACCTTCTAAAAATTAC
1 CATTTTTGA-CCCTAAATTTC-AAAAA-TAC
* * *
738685 CA-TTTT-ACCCTTAGATGTCCAAAATAC
1 CATTTTTGACCC-TAAATTTCAAAAATAC
*
738712 CATTTTTGACCCTAAACTTTTAAAAAATCAC
1 CATTTTTGACCCTAAA--TTTCAAAAAT-AC
* * *
738743 CA-TTTT-ACCCTCAAATGTCTGAAAATTC
1 CATTTTTGACCCT-AAATTTC-AAAAATAC
* *
738771 CATTTTTGCCCCTAAAGTATTCAAAATTAC
1 CATTTTTGACCCTAAA-T-TTCAAAAATAC
*
738801 CGTTTT
1 CATTTT
738807 ACCCCTAAGT
Statistics
Matches: 335, Mismatches: 71, Indels: 85
0.68 0.14 0.17
Matches are distributed among these distances:
27 6 0.02
28 52 0.16
29 78 0.23
30 155 0.46
31 41 0.12
32 3 0.01
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (28 bp):
CATTTTTGACCCTAAATTTCAAAAATAC
Found at i:738738 original size:58 final size:57
Alignment explanation
Indices: 738323--738810 Score: 240
Period size: 58 Copynumber: 8.3 Consensus size: 57
738313 AAACTTCCAG
* * * **
738323 AAATTA-CATTTTTACCCTTAAACTTTCAAAAATACCATTTTTGACCCTAAAACTTCCAA
1 AAATTACCA-TTTTACCCTTAGA-TGTCCAAAATACCATTTTTGACCCT-AAACTTTTAA
* * * *
738382 AAATTA-CATTTTTACCCCTAAAACTTTCAAAAATTA-CATTTTT-ACCCCTAAAACTTTTAA
1 AAATTACCA-TTTTA-CCCTTAGA-TGTCCAAAA-TACCATTTTTGA-CCCT-AAACTTTTAA
* * * ** * * *
738442 AAATTA-CATTTTTACCCTTAAACTTTTCAAAATTTCATTTTTTGACCTTTAACTTTCCAA
1 AAATTACCA-TTTTACCCTTAGA-TGTCCAAAATACCA-TTTTTGACCCTAAACTTT-TAA
** * * * * * ***
738502 AAATTA-CATTTTTACCC-CCGTATCTTCCAAAATCCCATTGTT-AACGTCAAACCTTCCGA
1 AAATTACCA-TTTTACCCTTAG-AT-GTCCAAAATACCATTTTTGACCCT-AAA-CTTTTAA
* * * * *
738561 AAATTACCATTTTTACCCCTAGATGTCCAAAATATCATTTTTGACCTTGAACTTTCCAA
1 AAATTACCA-TTTTACCCTTAGATGTCCAAAATACCATTTTTGACCCTAAACTTT-TAA
* * * * * * *
738620 AAATTA-CATTTTTGCCCTGA-ATCTTCCAAAATCCCATTTTTGACCCCGAACCTTCTAA
1 AAATTACCA-TTTTACCCTTAGAT-GTCCAAAATACCATTTTTGA-CCCTAAACTTTTAA
738678 AAATTACCATTTTACCCTTAGATGTCCAAAATACCATTTTTGACCCTAAACTTTTAAA
1 AAATTACCATTTTACCCTTAGATGTCCAAAATACCATTTTTGACCCTAAACTTTT-AA
* * * * * * * * *
738736 AAATCACCATTTTACCCTCAAATGTCTGAAAATTCCATTTTTGCCCCTAAAGTATTCA
1 AAATTACCATTTTACCCTTAGATGTC-CAAAATACCATTTTTGACCCTAAACTTTTAA
*
738794 AAATTACCGTTTTACCC
1 AAATTACCATTTTACCC
738811 CTAAGTATCC
Statistics
Matches: 345, Mismatches: 63, Indels: 43
0.76 0.14 0.10
Matches are distributed among these distances:
57 11 0.03
58 111 0.32
59 111 0.32
60 108 0.31
61 4 0.01
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.37
Consensus pattern (57 bp):
AAATTACCATTTTACCCTTAGATGTCCAAAATACCATTTTTGACCCTAAACTTTTAA
Found at i:738797 original size:116 final size:116
Alignment explanation
Indices: 738182--738813 Score: 363
Period size: 119 Copynumber: 5.4 Consensus size: 116
738172 AAAAATTACA
* * * * * **
738182 TTTTAACCCCTAAACTTTCTAAAAATTA-CATTTTAACCCCTAAACTTTTCAAAA-ATTATATTT
1 TTTTGACCCCGAAAC-TTCTAAAAATTACCATTTT-ACCCCTAGA-TGTCCAAAATACCAT-TTT
* * * * **
738245 TGACTCCCAAACTTTCCAAAAATTAC-TATTTTACCTCTAAA-CTTCAAAAAATTACAT
62 TGAC-CCTAAACTTTCAAAAAATCACAT-TTTTACC-CTAAATCTTC-CAAAATCCCAT
* * * * * * * * *
738302 TTTTTACCTCAAAACTTCCAGAAATTA-CATTTTTACCCTTAAACTTTCAAAAATACCATTTTTG
1 TTTTGACCCCGAAACTTCTAAAAATTACCA-TTTTACCCCTAGA-TGTCCAAAATACCATTTTTG
* * * * **
738366 ACCCTAAAAC-TTCCAAAAATTACATTTTTACCCCTAAAACTTTCAAAAATTACAT
64 ACCCT-AAACTTTCAAAAAATCACATTTTTA-CCCTAAATC-TTCCAAAATCCCAT
* * * * * * **
738421 TTTT-ACCCCTAAAACTTTTAAAAATTA-CATTTTTACCCTTAAACTTTTCAAAATTTCATTTTT
1 TTTTGACCCC-GAAACTTCTAAAAATTACCA-TTTTACCCCTAGA-TGTCCAAAATACCA-TTTT
* * * * ***
738484 TGACCTTTAACTTTCCAAAAATTACATTTTTACCCCCGTATCTTCCAAAATCCCAT
62 TGACCCTAAACTTTCAAAAAATCACATTTTTA-CCCTAAATCTTCCAAAATCCCAT
* * ** ** *
738540 TGTTAACGTC-AAACCTTCCGAAAATTACCATTTTTACCCCTAGATGTCCAAAATATCATTTTTG
1 TTTTGACCCCGAAA-CTTCTAAAAATTACCA-TTTTACCCCTAGATGTCCAAAATACCATTTTTG
* * * * * *
738604 ACCTTGAACTTTCCAAAAATTACATTTTTGCCCTGAATCTTCCAAAATCCCAT
64 ACCCTAAACTTTCAAAAAATCACATTTTTACCCTAAATCTTCCAAAATCCCAT
* *
738657 TTTTGACCCCGAACCTTCTAAAAATTACCATTTTACCCTTAGATGTCCAAAATACCATTTTTGAC
1 TTTTGACCCCGAAACTTCTAAAAATTACCATTTTACCCCTAGATGTCCAAAATACCATTTTTGAC
* * * *
738722 CCTAAACTTTTAAAAAATCACCA-TTTTACCCTCAAAT-GTCTGAAAATTCCAT
66 CCTAAACTTTCAAAAAATCA-CATTTTTACCCT-AAATCTTC-CAAAATCCCAT
* * * *
738774 TTTTG-CCCCTAAAGTAT-TCAAAATTACCGTTTTACCCCTA
1 TTTTGACCCCGAAACT-TCTAAAAATTACCATTTTACCCCTA
738814 AGTATCCAAA
Statistics
Matches: 426, Mismatches: 68, Indels: 40
0.80 0.13 0.07
Matches are distributed among these distances:
116 85 0.20
117 61 0.14
118 68 0.16
119 137 0.32
120 75 0.18
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.37
Consensus pattern (116 bp):
TTTTGACCCCGAAACTTCTAAAAATTACCATTTTACCCCTAGATGTCCAAAATACCATTTTTGAC
CCTAAACTTTCAAAAAATCACATTTTTACCCTAAATCTTCCAAAATCCCAT
Found at i:745579 original size:70 final size:72
Alignment explanation
Indices: 745497--745659 Score: 240
Period size: 72 Copynumber: 2.3 Consensus size: 72
745487 CAAAAATATC
* * * * *
745497 AAAATATTAATATTTATTACTTCCAAGGATGAGTTGTT-GA-CACATTATTTTATTTTGACTATA
1 AAAATATTAATATTTATTACTTCCAAGGATAACTTGTTGGACCACATCATATTATTTTAACTATA
*
745560 TTTATTT
66 TTAATTT
* *
745567 AAAATATTAATATTTATTATTTCCAAGGATAACTTGTTGGACCTCATCATATTATTTTAACTATA
1 AAAATATTAATATTTATTACTTCCAAGGATAACTTGTTGGACCACATCATATTATTTTAACTATA
745632 TTAATTT
66 TTAATTT
745639 AAAATATTAATATTTATTACT
1 AAAATATTAATATTTATTACT
745660 CTCAAGTTGC
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
70 35 0.43
71 2 0.02
72 45 0.55
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.47
Consensus pattern (72 bp):
AAAATATTAATATTTATTACTTCCAAGGATAACTTGTTGGACCACATCATATTATTTTAACTATA
TTAATTT
Found at i:745686 original size:66 final size:68
Alignment explanation
Indices: 745497--745691 Score: 175
Period size: 72 Copynumber: 2.8 Consensus size: 68
745487 CAAAAATATC
* * * * *
745497 AAAATATTAATATTTATTA-CTTCCAAGGATGAGTTGTTGA-CACATTATTTTATTTTGACTATA
1 AAAATATTAATATTTATTATC-TCCAAGGAT-TGCTG--GACCTCATTATATTATTTTAACTATA
*
745560 TTTATTT
62 TTAATTT
* * *
745567 AAAATATTAATATTTATTATTTCCAAGGATAACTTGTTGGACCTCATCATATTATTTTAACTATA
1 AAAATATTAATATTTATTATCTCCAAGG---A-TTGCTGGACCTCATTATATTATTTTAACTATA
745632 TTAATTT
62 TTAATTT
* *
745639 AAAATATTAATATTTATTA-CTCTCAA-G-TTGCTGGATCTCGTTATATTATTTTA
1 AAAATATTAATATTTATTATCTC-CAAGGATTGCTGGACCTCATTATATTATTTTA
745692 GGACGATTTG
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
66 22 0.21
70 26 0.25
71 5 0.05
72 47 0.44
73 5 0.05
74 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (68 bp):
AAAATATTAATATTTATTATCTCCAAGGATTGCTGGACCTCATTATATTATTTTAACTATATTAA
TTT
Found at i:746066 original size:24 final size:23
Alignment explanation
Indices: 746038--746082 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
746028 TAATTTTTAA
746038 TTAA-TAAGCATGTTATTTAAGTCT
1 TTAATTAA-CATGTT-TTTAAGTCT
746062 TTAATTAACATGTTTTTAAGT
1 TTAATTAACATGTTTTTAAGT
746083 TTTTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 10 0.50
25 3 0.15
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (23 bp):
TTAATTAACATGTTTTTAAGTCT
Found at i:746088 original size:24 final size:24
Alignment explanation
Indices: 746024--746088 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 24
746014 AAGCTCTTTT
*
746024 TTTTTAATTTTTAATTAATAAGCATG
1 TTTTTAAGTTTT--TTAATAAGCATG
*
746050 TTATTTAAG-TCTTTAATTAA-CATG
1 TT-TTTAAGTTTTTTAA-TAAGCATG
746074 TTTTTAAGTTTTTTA
1 TTTTTAAGTTTTTTA
746089 TTTTATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
23 6 0.18
24 15 0.45
25 3 0.09
26 4 0.12
27 5 0.15
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTTTAAGTTTTTTAATAAGCATG
Found at i:746229 original size:14 final size:15
Alignment explanation
Indices: 746190--746230 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
746180 AAAAACATCA
746190 ACTAATTTTTTATAT
1 ACTAATTTTTTATAT
746205 ACT--TTTCTTTATAT
1 ACTAATTT-TTTATAT
746219 A-TAATTTTTTAT
1 ACTAATTTTTTAT
746231 GTCAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 4 0.17
14 13 0.57
15 6 0.26
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ACTAATTTTTTATAT
Found at i:746545 original size:175 final size:176
Alignment explanation
Indices: 746220--746575 Score: 417
Period size: 181 Copynumber: 2.0 Consensus size: 176
746210 TCTTTATATA
* * * * * *
746220 TAATTTTTTATGTCAAATATTTATTTTTTATGCACATGGTAGGTATCATAAATTTTAATATTTTA
1 TAATGTTTTACGTAAAATATTTATTTTTTATGCACATGGTAGATATCATAAATTCTAATATTATA
*
746285 AAAATAATTTTTTCAAATATCATTATTTTTTCACTTACATTTGGGAATATAAAAAAATTATATTC
66 AAAATAATTTTTT-AAATATCATTATTTTTTCACTTACATTTGCGAATATAAAAAAATTATATTC
746350 ATATGTATCACTATGTTAAATATATATATATTTATATTTAAAAACATCAAC
130 ATATGTATCACTATGTTAAATATAT-TATA-TT-T-TTTAAAAACATCAAC
* * *
746401 TAATGTTTTACGTAAAATATTTATTTTTTACT-TACATTGTCA-ATATCGTAAATTCTAATATTA
1 TAATGTTTTACGTAAAATATTTATTTTTTA-TGCACATGGT-AGATATCATAAATTCTAATATTA
*
746464 TAAAAATAATTATTTT-AA-AT-ATT-TTTTTT-ACTTACA-TTGTCG-ATATAATGAAAA-TAT
64 TAAAAATAATT-TTTTAAATATCATTATTTTTTCACTTACATTTG-CGAATATAA-AAAAATTAT
* * * *
746521 ATTCTTATGTATCATTATGTTAAATATATTTTATTTTTTAAAAACATTAAC
126 ATTCATATGTATCACTATGTTAAATATATTATATTTTTTAAAAACATCAAC
746572 TAAT
1 TAAT
746576 TTTATATAGT
Statistics
Matches: 155, Mismatches: 15, Indels: 20
0.82 0.08 0.11
Matches are distributed among these distances:
171 18 0.12
172 1 0.01
173 2 0.01
174 3 0.02
175 39 0.25
176 12 0.08
177 6 0.04
178 3 0.02
179 2 0.01
180 2 0.01
181 61 0.39
182 6 0.04
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.48
Consensus pattern (176 bp):
TAATGTTTTACGTAAAATATTTATTTTTTATGCACATGGTAGATATCATAAATTCTAATATTATA
AAAATAATTTTTTAAATATCATTATTTTTTCACTTACATTTGCGAATATAAAAAAATTATATTCA
TATGTATCACTATGTTAAATATATTATATTTTTTAAAAACATCAAC
Found at i:747442 original size:72 final size:72
Alignment explanation
Indices: 747349--747518 Score: 225
Period size: 72 Copynumber: 2.4 Consensus size: 72
747339 AGACAAAATT
* *
747349 TATATTATTTT-AGCTATATTTATTTAAAACATTAATATTTATTACTTCCAAGGAAGAGTTGTAG
1 TATATTATTTTGA-CTACATTTATTTAAAACATTAATATTTATTACTTCCAAAGAAGAGTTGTAG
* * *
747413 GATCTCAT
65 GAACCCAC
* * * * *
747421 TGTATTATTTTGACTACATTTATTAAAAATATTAATATTTATTACTTCCAAAGAGGAGTTGTTGG
1 TATATTATTTTGACTACATTTATTTAAAACATTAATATTTATTACTTCCAAAGAAGAGTTGTAGG
747486 AACCCAC
66 AACCCAC
*
747493 TATATTATTTTGATTACATTTATTTA
1 TATATTATTTTGACTACATTTATTTA
747519 TTCTAATTTC
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
72 83 0.99
73 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (72 bp):
TATATTATTTTGACTACATTTATTTAAAACATTAATATTTATTACTTCCAAAGAAGAGTTGTAGG
AACCCAC
Found at i:748604 original size:33 final size:32
Alignment explanation
Indices: 748536--748618 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
748526 GGACCCCAAA
* *
748536 AAGTTTAAGTACCAACTTAAAAAAAAAGTGCC
1 AAGTTTAAGTACCAAATTAAAAAAAAAGTACC
*
748568 AAGTTTAAGTACCAAATTAGTAAAAAAAA-TATC
1 AAGTTTAAGTACCAAATTA--AAAAAAAAGTACC
* *
748601 AAGTTTGAGTACTAAATT
1 AAGTTTAAGTACCAAATT
748619 GGACCCAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
32 18 0.41
33 18 0.41
34 8 0.18
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (32 bp):
AAGTTTAAGTACCAAATTAAAAAAAAAGTACC
Found at i:755919 original size:13 final size:13
Alignment explanation
Indices: 755901--755929 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
755891 TTATTGAATA
755901 CTTCTGCTGCTGC
1 CTTCTGCTGCTGC
755914 CTTCTGCTGCTGC
1 CTTCTGCTGCTGC
755927 CTT
1 CTT
755930 ATACAGCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.38, G:0.21, T:0.41
Consensus pattern (13 bp):
CTTCTGCTGCTGC
Found at i:756306 original size:20 final size:20
Alignment explanation
Indices: 756267--756309 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
756257 AGTTGCATTC
* **
756267 ATAAAATTTTAATTTTAATT
1 ATAAAATATTAATTAAAATT
756287 ATAAAATATTAATTAAAATT
1 ATAAAATATTAATTAAAATT
756307 ATA
1 ATA
756310 TAATGCATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAAATATTAATTAAAATT
Found at i:765842 original size:24 final size:24
Alignment explanation
Indices: 765796--765847 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
765786 CATGTACTTC
765796 ATACTATTTTTTTATAAATTTTTT
1 ATACTATTTTTTTATAAATTTTTT
*
765820 ATACTTTTTATTTTA-AATATTTTTT
1 ATACTATTT-TTTTATAA-ATTTTTT
765845 ATA
1 ATA
765848 AAATTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (24 bp):
ATACTATTTTTTTATAAATTTTTT
Found at i:765854 original size:25 final size:25
Alignment explanation
Indices: 765801--765854 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
765791 ACTTCATACT
**
765801 ATTT-TTTTATAAATTTTTTATACT
1 ATTTATTTTATAAATTTTTTATAAA
*
765825 TTTTATTTTA-AATATTTTTTATAAA
1 ATTTATTTTATAA-ATTTTTTATAAA
765850 ATTTA
1 ATTTA
765855 AATTTTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
ATTTATTTTATAAATTTTTTATAAA
Found at i:766459 original size:19 final size:19
Alignment explanation
Indices: 766435--766471 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
766425 TTTTTATATT
766435 TTTTGTATGCATTTTATAA
1 TTTTGTATGCATTTTATAA
*
766454 TTTTGTATGTATTTTATA
1 TTTTGTATGCATTTTATA
766472 GAAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.11, T:0.62
Consensus pattern (19 bp):
TTTTGTATGCATTTTATAA
Found at i:767043 original size:19 final size:20
Alignment explanation
Indices: 767009--767046 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
766999 ATATTTATAA
*
767009 TTAATTTTTATTTTTTAAAG
1 TTAAATTTTATTTTTTAAAG
767029 TTAAATTTT-TTTTTTAAA
1 TTAAATTTTATTTTTTAAA
767047 TGTTGAGCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
TTAAATTTTATTTTTTAAAG
Found at i:768377 original size:71 final size:71
Alignment explanation
Indices: 768187--768380 Score: 239
Period size: 72 Copynumber: 2.7 Consensus size: 71
768177 ACTTCCAAGC
* * * * * *
768187 ACCTCATTATTTTATTTTTATTACATTTGTTTAAAATATTAATATTTATTACTTCCAAGGACAAC
1 ACCTCATTATATTA-TTTTAATACCTTTATTTAAAATATTAATATTTATTACTCCCAAAGACAAC
*
768252 TTGTTGG
65 TTGTAGG
* *
768259 ACCTCATCATATTATTTTAACGA-CTTTAATTTAAAATATTAATATTTATTACTCCCAAAGACAA
1 ACCTCATTATATTATTTTAA-TACCTTT-ATTTAAAATATTAATATTTATTACTCCCAAAGACAA
*
768323 GTTGTAGG
64 CTTGTAGG
*
768331 A-CTCATTATATTATTTCCAATACCTTTATTTAAAATATTAATATTTATTA
1 ACCTCATTATATTATTT-TAATACCTTTATTTAAAATATTAATATTTATTA
768381 ATTCTTAGGA
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
71 46 0.44
72 59 0.56
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (71 bp):
ACCTCATTATATTATTTTAATACCTTTATTTAAAATATTAATATTTATTACTCCCAAAGACAACT
TGTAGG
Found at i:770323 original size:21 final size:22
Alignment explanation
Indices: 770290--770351 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 22
770280 TTTAATTAGT
* *
770290 TTTAAGGTTTTTTAAATTAGAG
1 TTTAGGGTATTTTAAATTAGAG
* *
770312 TTT-TGGTATTTTAAATAAGAG
1 TTTAGGGTATTTTAAATTAGAG
770333 TTTAGGGTATTTTAAATTA
1 TTTAGGGTATTTTAAATTA
770352 ATAGTTATAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 18 0.53
22 16 0.47
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (22 bp):
TTTAGGGTATTTTAAATTAGAG
Found at i:771158 original size:30 final size:31
Alignment explanation
Indices: 771124--771186 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
771114 ACAAAAATGC
771124 AAAATTTAGATATATTA-TTTTGAAATTTTA
1 AAAATTTAGATATATTAGTTTTGAAATTTTA
*
771154 AAAATTTAGATATGTTAGTTTTGAAATTTTA
1 AAAATTTAGATATATTAGTTTTGAAATTTTA
771185 AA
1 AA
771187 CTTTAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (31 bp):
AAAATTTAGATATATTAGTTTTGAAATTTTA
Found at i:771271 original size:26 final size:27
Alignment explanation
Indices: 771242--771315 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
771232 TGAATATATG
* *
771242 TTTTTGAAAACTTAAGTTTTTA-GTAA
1 TTTTTGAAATCTTAAGTTTTTATATAA
**
771268 TTTTT-ACTTCTTTAA-TTTTTATATAA
1 TTTTTGAAATC-TTAAGTTTTTATATAA
771294 TATTTTGAAATCTTAAGTTTTT
1 T-TTTTGAAATCTTAAGTTTTT
771316 TAAATTACAC
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
25 8 0.22
26 13 0.35
27 8 0.22
28 8 0.22
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (27 bp):
TTTTTGAAATCTTAAGTTTTTATATAA
Found at i:771361 original size:15 final size:16
Alignment explanation
Indices: 771337--771366 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
771327 CTAATTTAAA
771337 TTAAACAAATCCTAAT
1 TTAAACAAATCCTAAT
771353 TTAAA-AAATCCTAA
1 TTAAACAAATCCTAA
771367 AACTAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAAACAAATCCTAAT
Found at i:771456 original size:48 final size:48
Alignment explanation
Indices: 771365--771463 Score: 137
Period size: 48 Copynumber: 2.1 Consensus size: 48
771355 AAAAAATCCT
* **
771365 AAAACTAATTAAAACAAAAACACCTTAAACCCTAAGGTTCAAAATAGC
1 AAAACTAATTAAAACAAAAACACCTTAAACCCTAAAGCCCAAAATAGC
* *
771413 AAAACTAATTAAAACAAAAACATCC-TAAACCTTAAAGCCCAAAATTGC
1 AAAACTAATTAAAACAAAAACA-CCTTAAACCCTAAAGCCCAAAATAGC
771461 AAA
1 AAA
771464 TTTCAAACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
48 43 0.96
49 2 0.04
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.18
Consensus pattern (48 bp):
AAAACTAATTAAAACAAAAACACCTTAAACCCTAAAGCCCAAAATAGC
Found at i:774061 original size:71 final size:71
Alignment explanation
Indices: 773871--774064 Score: 239
Period size: 72 Copynumber: 2.7 Consensus size: 71
773861 ACTTCCAAGC
* * * * * *
773871 ACCTCATTATTTTATTTTTATTACATTTGTTTAAAATATTAATATTTATTACTTCCAAGGACAAC
1 ACCTCATTATATTA-TTTTAATACCTTTATTTAAAATATTAATATTTATTACTCCCAAAGACAAC
*
773936 TTGTTGG
65 TTGTAGG
* *
773943 ACCTCATCATATTATTTTAACGA-CTTTAATTTAAAATATTAATATTTATTACTCCCAAAGACAA
1 ACCTCATTATATTATTTTAA-TACCTTT-ATTTAAAATATTAATATTTATTACTCCCAAAGACAA
*
774007 GTTGTAGG
64 CTTGTAGG
*
774015 A-CTCATTATATTATTTCCAATACCTTTATTTAAAATATTAATATTTATTA
1 ACCTCATTATATTATTT-TAATACCTTTATTTAAAATATTAATATTTATTA
774065 ATTCTTAGGA
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
71 46 0.44
72 59 0.56
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (71 bp):
ACCTCATTATATTATTTTAATACCTTTATTTAAAATATTAATATTTATTACTCCCAAAGACAACT
TGTAGG
Found at i:776005 original size:21 final size:22
Alignment explanation
Indices: 775971--776031 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
775961 TTTAATTAGT
*
775971 TTTAAGGT-TTTTAAATTAGAG
1 TTTAGGGTATTTTAAATTAGAG
* * *
775992 TTT-TGGTATTTTAAATAAGGG
1 TTTAGGGTATTTTAAATTAGAG
776013 TTTAGGGTATTTTAAATTA
1 TTTAGGGTATTTTAAATTA
776032 ATAGTTATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 3 0.09
21 17 0.52
22 13 0.39
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (22 bp):
TTTAGGGTATTTTAAATTAGAG
Found at i:776677 original size:29 final size:29
Alignment explanation
Indices: 776596--776677 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 29
776586 AAAAAAACAA
* *
776596 AATTCATCTCATCAAAATAATTTTTTCAG
1 AATTCATCTTATCAAAATTATTTTTTCAG
** * * **
776625 AACACATCATGTCAATTTTATTTTTT-AG
1 AATTCATCTTATCAAAATTATTTTTTCAG
*
776653 AATTCATCTTTTCAAAATTATTTTT
1 AATTCATCTTATCAAAATTATTTTT
776678 CAAAACGCAT
Statistics
Matches: 39, Mismatches: 14, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
28 21 0.54
29 18 0.46
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.48
Consensus pattern (29 bp):
AATTCATCTTATCAAAATTATTTTTTCAG
Found at i:776839 original size:30 final size:31
Alignment explanation
Indices: 776805--776864 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
776795 CAAAAATGCA
776805 AAATTTAGATATATTA-TTTTGAAATTTTAG
1 AAATTTAGATATATTAGTTTTGAAATTTTAG
*
776835 AAATTTAGATATGTTAGTTTTGAAATTTTA
1 AAATTTAGATATATTAGTTTTGAAATTTTA
776865 AACTTTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (31 bp):
AAATTTAGATATATTAGTTTTGAAATTTTAG
Found at i:777096 original size:48 final size:48
Alignment explanation
Indices: 777044--777142 Score: 137
Period size: 48 Copynumber: 2.1 Consensus size: 48
777034 AAAAAACCCT
* *
777044 AAAACTAATTAAAACAAAAACA-CCTTAAACCCTAAGGTTCAAAATAGC
1 AAAACTAATTAAAACAAAAACATCC-TAAACCCTAAAGTCCAAAATAGC
* * *
777092 AAAACTAATTAAAACGAAAACATCCTAAACCTTAAAGTCCAAAATTGC
1 AAAACTAATTAAAACAAAAACATCCTAAACCCTAAAGTCCAAAATAGC
777140 AAA
1 AAA
777143 TTTCAAACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
48 43 0.96
49 2 0.04
ACGTcount: A:0.55, C:0.20, G:0.06, T:0.19
Consensus pattern (48 bp):
AAAACTAATTAAAACAAAAACATCCTAAACCCTAAAGTCCAAAATAGC
Found at i:780891 original size:51 final size:52
Alignment explanation
Indices: 780811--780937 Score: 141
Period size: 51 Copynumber: 2.4 Consensus size: 52
780801 AGTGATATAT
* * * * *
780811 ATAATTTATTGCTTGAAGACTTTAACATAGCATAATAAAA-G-CATGGCATGC
1 ATAATTCATTCCTTGAACAC-TTAACATAGCATAACAAAAGGCCATAGCATGC
* * *
780862 ATAATTCCTTTCTTGATCACTTAAGCATAGCATAACAAAAGTGCCATAGCATGC
1 ATAATTCATTCCTTGAACACTTAA-CATAGCATAACAAAAG-GCCATAGCATGC
780916 ATAATTCATTCCTTGAACACTT
1 ATAATTCATTCCTTGAACACTT
780938 CAACTTATAC
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
50 4 0.06
51 29 0.47
53 1 0.02
54 28 0.45
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (52 bp):
ATAATTCATTCCTTGAACACTTAACATAGCATAACAAAAGGCCATAGCATGC
Found at i:781924 original size:40 final size:40
Alignment explanation
Indices: 781875--781962 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
781865 TGGACAAAAA
* *
781875 AAACGCCGCAAAAGGTAAAACAATAGCGACGTTTTTCCAT
1 AAACGCCGCAAAACGTAAAAAAATAGCGACGTTTTTCCAT
* *
781915 AAACGCCGCAAAACGTAAAAAAATAGCGGCGTTTTTTCAT
1 AAACGCCGCAAAACGTAAAAAAATAGCGACGTTTTTCCAT
781955 AAACGCCG
1 AAACGCCG
781963 TTAAAGGTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (40 bp):
AAACGCCGCAAAACGTAAAAAAATAGCGACGTTTTTCCAT
Found at i:786274 original size:54 final size:51
Alignment explanation
Indices: 786189--786292 Score: 145
Period size: 54 Copynumber: 2.0 Consensus size: 51
786179 AAGACTCTAA
* * * *
786189 CATAGCATAACAAAGGCGTGGCATGCATAATTCCTTTCTTGAACACTTTAG
1 CATAGCATAACAAAGGCATAGCATGCATAATTCATTCCTTGAACACTTTAG
786240 CATAGCATAACAGAAGTGCCATAGCATGCATAATTCATTCCTTGAACACTTTA
1 CATAGCATAACA-AAG-G-CATAGCATGCATAATTCATTCCTTGAACACTTTA
786293 ACTCATACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
51 12 0.26
52 3 0.07
53 1 0.02
54 30 0.65
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (51 bp):
CATAGCATAACAAAGGCATAGCATGCATAATTCATTCCTTGAACACTTTAG
Found at i:794570 original size:31 final size:31
Alignment explanation
Indices: 794519--794584 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
794509 ACAAAATCGG
*
794519 CATTGAACTATTAAAGAGTTTTCATTTAAGT
1 CATTAAACTATTAAAGAGTTTTCATTTAAGT
*
794550 CATTAAACTATTCAAA-AGTTTTTATTTAAGT
1 CATTAAACTATT-AAAGAGTTTTCATTTAAGT
794581 CATT
1 CATT
794585 GGCTATTAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 29 0.91
32 3 0.09
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (31 bp):
CATTAAACTATTAAAGAGTTTTCATTTAAGT
Found at i:796215 original size:25 final size:25
Alignment explanation
Indices: 796163--796214 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
796153 CAACACCTCC
*
796163 TTTCTTCTATTAATTAGTTCCTTTT
1 TTTCTTCTATCAATTAGTTCCTTTT
796188 TTTCTTCT-TCAATATA-TTCCTTTT
1 TTTCTTCTATCAAT-TAGTTCCTTTT
796212 TTT
1 TTT
796215 TTGTTTTCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.15, C:0.17, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTCTTCTATCAATTAGTTCCTTTT
Found at i:804406 original size:17 final size:18
Alignment explanation
Indices: 804376--804416 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
804366 TTTACAATTT
804376 ATTTTTATCATA-TTAAA
1 ATTTTTATCATATTTAAA
*
804393 ATTTTTAT-AGTATTTAAT
1 ATTTTTATCA-TATTTAAA
804411 ATTTTT
1 ATTTTT
804417 TAAAGTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 10 0.48
18 10 0.48
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
ATTTTTATCATATTTAAA
Found at i:804717 original size:31 final size:30
Alignment explanation
Indices: 804681--804739 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 30
804671 TAATGAAACT
*
804681 CATTATTTAAAACTAATTAACAATAATTACA
1 CATTATTTAAAACTAATTAA-AACAATTACA
804712 CATTATTTAAAACTAATTAAAACAATTA
1 CATTATTTAAAACTAATTAAAACAATTA
804740 GATTTAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.36
Consensus pattern (30 bp):
CATTATTTAAAACTAATTAAAACAATTACA
Found at i:805368 original size:30 final size:30
Alignment explanation
Indices: 805334--805394 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
805324 TTAGTAATGT
805334 CTATTAGAAAATATATAATTACAAAAAAGG
1 CTATTAGAAAATATATAATTACAAAAAAGG
805364 CTATTAGAAAATATATAATTACAAAAAAGG
1 CTATTAGAAAATATATAATTACAAAAAAGG
805394 C
1 C
805395 AAATGGAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.26
Consensus pattern (30 bp):
CTATTAGAAAATATATAATTACAAAAAAGG
Found at i:816480 original size:30 final size:29
Alignment explanation
Indices: 816446--816574 Score: 127
Period size: 30 Copynumber: 4.3 Consensus size: 29
816436 ACATTAAAAC
* *
816446 GGGGTCAAATTTTAAATTTT-GAAAACTTT
1 GGGGTCAAATTTGAATTTTTGGAAAA-TTT
* *
816475 AGGGGTTAAACTTGAATTTTTGGAAAATTT
1 -GGGGTCAAATTTGAATTTTTGGAAAATTT
*
816505 GGGGGTTAAATTTGAATTTTTGGAAAATTT
1 -GGGGTCAAATTTGAATTTTTGGAAAATTT
* *
816535 GATGATCAAATTTGAATTTTT-GAAAACTTT
1 G-GGGTCAAATTTGAATTTTTGGAAAA-TTT
816565 GGTGGTCAAA
1 GG-GGTCAAA
816575 AAATGATTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
29 6 0.07
30 73 0.87
31 5 0.06
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (29 bp):
GGGGTCAAATTTGAATTTTTGGAAAATTT
Found at i:819973 original size:16 final size:16
Alignment explanation
Indices: 819939--819985 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
819929 AAAATAAAAA
*
819939 TATAATTTTCATATTTT
1 TATAATTTTGAT-TTTT
* *
819956 TATGATTTTTATTTTT
1 TATAATTTTGATTTTT
819972 TATAATTTTGATTT
1 TATAATTTTGATTT
819986 GAATTTTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 16 0.62
17 10 0.38
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (16 bp):
TATAATTTTGATTTTT
Found at i:822718 original size:15 final size:16
Alignment explanation
Indices: 822698--822738 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
822688 TAATGTCTTT
822698 TAAATTATAAAAAT-A
1 TAAATTATAAAAATAA
*
822713 TAAATTATTAAAATAA
1 TAAATTATAAAAATAA
822729 TAAAATTATA
1 T-AAATTATA
822739 TTTTAATATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 13 0.59
16 2 0.09
17 7 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAATTATAAAAATAA
Found at i:836453 original size:15 final size:15
Alignment explanation
Indices: 836430--836461 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
836420 TATATTTATA
836430 ATTTCTTATCATAAT
1 ATTTCTTATCATAAT
*
836445 ATTTTTTATCATAAT
1 ATTTCTTATCATAAT
836460 AT
1 AT
836462 ATTAATTCAT
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:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTCTTATCATAAT
Found at i:839452 original size:101 final size:102
Alignment explanation
Indices: 839331--839566 Score: 350
Period size: 101 Copynumber: 2.3 Consensus size: 102
839321 AAAAATTTGG
** * * * *
839331 GGTGTTGGTCATTGCATGGTCGACACCCCCTTGCATTTTTGGGTGTTGGTCATTGCATGGTCGAC
1 GGTGTTGGTCATTAAATGGTCGACACCCCCTTACATTTTTGAGTGTTGATCATTGCATGGCCGAC
*
839396 A-CCCCTTGTTTCAGAAAAAAAATTTCAAAATTTTTTT
66 ACCCCCTTGTTTCAGAAAAAAAAATTC-AAATTTTTTT
*
839433 -GTGTTGGCCATTAAATGGTCGACACCCCCTTACATTTTTGAGTGTTGATCATTGCATGGCCGAC
1 GGTGTTGGTCATTAAATGGTCGACACCCCCTTACATTTTTGAGTGTTGATCATTGCATGGCCGAC
839497 ACCCCCTTGTTTCAGAAAAAAAAATTCAAATTTTTTT
66 ACCCCCTTGTTTCAGAAAAAAAAATTCAAATTTTTTT
* *
839534 GGGTGTTGGTCATCAAATGGCCGACACCCCCTT
1 -GGTGTTGGTCATTAAATGGTCGACACCCCCTT
839567 TTTCTTGAGA
Statistics
Matches: 120, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
101 68 0.57
102 24 0.20
103 28 0.23
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (102 bp):
GGTGTTGGTCATTAAATGGTCGACACCCCCTTACATTTTTGAGTGTTGATCATTGCATGGCCGAC
ACCCCCTTGTTTCAGAAAAAAAAATTCAAATTTTTTT
Found at i:839685 original size:60 final size:62
Alignment explanation
Indices: 839621--839736 Score: 193
Period size: 62 Copynumber: 1.9 Consensus size: 62
839611 GTGTCGGCCA
*
839621 TTCTCGAGA-AAAAAAA-TTCAAA-TTTTTTGGTGTTGGCCATCAAATGGTCGACACTCCCTT
1 TTCTCGA-ATAAAAAAATTTCAAATTTTTTTGGTGTCGGCCATCAAATGGTCGACACTCCCTT
839681 TTCTCGAATAAAAAAATTTCAAATTTTTTTGGTGTCGGCCATCAAATGGTCGACAC
1 TTCTCGAATAAAAAAATTTCAAATTTTTTTGGTGTCGGCCATCAAATGGTCGACAC
839737 CAACTTCTCC
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
59 1 0.02
60 14 0.27
61 6 0.12
62 31 0.60
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (62 bp):
TTCTCGAATAAAAAAATTTCAAATTTTTTTGGTGTCGGCCATCAAATGGTCGACACTCCCTT
Found at i:840592 original size:30 final size:30
Alignment explanation
Indices: 840558--840627 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
840548 AAAAAATAAT
840558 AATTAAAATATAC-ATGAAATTAGAAAGAAA
1 AATTAAAATATACAAT-AAATTAGAAAGAAA
* **
840588 AATTAAAATATACAATAAATTCGAAATTAA
1 AATTAAAATATACAATAAATTAGAAAGAAA
*
840618 ATTTAAAATA
1 AATTAAAATA
840628 AAAACAAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 33 0.94
31 2 0.06
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (30 bp):
AATTAAAATATACAATAAATTAGAAAGAAA
Found at i:842875 original size:10 final size:10
Alignment explanation
Indices: 842860--842897 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
842850 TGAAACTCGA
842860 TCAACGGCGG
1 TCAACGGCGG
*
842870 TCAACGACGG
1 TCAACGGCGG
*
842880 TCAACGGTGG
1 TCAACGGCGG
842890 TCAACGGC
1 TCAACGGC
842898 AGTCTCGGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.24, C:0.29, G:0.34, T:0.13
Consensus pattern (10 bp):
TCAACGGCGG
Found at i:843167 original size:45 final size:44
Alignment explanation
Indices: 843118--843250 Score: 106
Period size: 45 Copynumber: 3.1 Consensus size: 44
843108 AAATTAATAA
843118 ATAATATATTATCAAATCAACACATTATATGATAAAAATTGTAAT
1 ATAATATATT-TCAAATCAACACATTATATGATAAAAATTGTAAT
* * * * *
843163 ATAATAAAATTT----T---TA-TTTA-AAGATATAAAATTAATAA-
1 ATAAT-ATATTTCAAATCAACACATTATATGATA-AAAATT-GTAAT
843200 ATAATATATTGTCAAATCAACACATTATATGATAAAAATTGTAAT
1 ATAATATATT-TCAAATCAACACATTATATGATAAAAATTGTAAT
843245 ATAATA
1 ATAATA
843251 AAATTTTTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 28
0.63 0.10 0.27
Matches are distributed among these distances:
36 9 0.14
37 15 0.23
38 4 0.06
41 2 0.03
44 4 0.06
45 21 0.33
46 9 0.14
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.37
Consensus pattern (44 bp):
ATAATATATTTCAAATCAACACATTATATGATAAAAATTGTAAT
Found at i:843308 original size:83 final size:83
Alignment explanation
Indices: 843061--843421 Score: 494
Period size: 83 Copynumber: 4.3 Consensus size: 83
843051 TAAATTTAAA
***
843061 ATATGATAAAAATTGTAATATAATAAAAAAATTTATTTAAAGATATAAAATTAATAAATAATATA
1 ATATGATAAAAATTGTAATATAATAAAATTTTTTATTTAAAGATATAAAATTAATAAATAATATA
843126 TTATCAAATCAACACATT
66 TTATCAAATCAACACATT
843144 ATATGATAAAAATTGTAATATAATAAAA-TTTTTATTTAAAGATATAAAATTAATAAATAATATA
1 ATATGATAAAAATTGTAATATAATAAAATTTTTTATTTAAAGATATAAAATTAATAAATAATATA
*
843208 TTGTCAAATCAACACATT
66 TTATCAAATCAACACATT
*
843226 ATATGATAAAAATTGTAATATAATAAAATTTTTTATTTAAAGATATAAAATTAATAAATAATGTA
1 ATATGATAAAAATTGTAATATAATAAAATTTTTTATTTAAAGATATAAAATTAATAAATAATATA
843291 TTATCAAATCAACACATT
66 TTATCAAATCAACACATT
* * *
843309 ATATGATAAAAATTATAATATAATAATAATAATTTGTAATTT-AA-ATATGAAAATTTGATAAAT
1 ATATGATAAAAATTGTAATATAATAA-AAT--TTT-TTATTTAAAGATAT-AAAA-TTAATAAAT
* * * * * *
843372 AATGTATTGTCAAATTAATATAAT
60 AATATATTATCAAATCAACACATT
* * *
843396 ATTTGATATAAATAGTAATATAATAA
1 ATATGATAAAAATTGTAATATAATAA
843422 CTATCTTTTT
Statistics
Matches: 254, Mismatches: 17, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
82 79 0.31
83 105 0.41
84 3 0.01
85 4 0.02
86 9 0.04
87 54 0.21
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (83 bp):
ATATGATAAAAATTGTAATATAATAAAATTTTTTATTTAAAGATATAAAATTAATAAATAATATA
TTATCAAATCAACACATT
Found at i:843333 original size:165 final size:169
Alignment explanation
Indices: 843061--843421 Score: 527
Period size: 165 Copynumber: 2.2 Consensus size: 169
843051 TAAATTTAAA
843061 ATATGATAAAAATTGTAATATAATAAAAAAATTTATTTAAAGATATAAAATTAATAAATAATATA
1 ATATGATAAAAATTGTAATATAATAAAAAAATTTATTTAAAGATATAAAATTAATAAATAATATA
*
843126 TTATCAAATCAACACATTATATGATAAAAATTGTAATATAATAA-AAT-TTT-T-ATTTAAAGAT
66 TTATCAAATCAACACATTATATGATAAAAATTATAATATAATAATAATATTTGTAATTT-AA-AT
*
843187 AT-AAAA-TTAATAAATAATATATTGTCAAATCAACACATT
129 ATGAAAATTTAATAAATAATATATTGTCAAATCAACACAAT
*** *
843226 ATATGATAAAAATTGTAATATAATAAAATTTTTTATTTAAAGATATAAAATTAATAAATAATGTA
1 ATATGATAAAAATTGTAATATAATAAAAAAATTTATTTAAAGATATAAAATTAATAAATAATATA
843291 TTATCAAATCAACACATTATATGATAAAAATTATAATATAATAATAATAATTTGTAATTTAAATA
66 TTATCAAATCAACACATTATATGATAAAAATTATAATATAATAATAAT-ATTTGTAATTTAAATA
* * * * *
843356 TGAAAATTTGATAAATAATGTATTGTCAAATTAATATAAT
130 TGAAAATTTAATAAATAATATATTGTCAAATCAACACAAT
* * *
843396 ATTTGATATAAATAGTAATATAATAA
1 ATATGATAAAAATTGTAATATAATAA
843422 CTATCTTTTT
Statistics
Matches: 175, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
165 104 0.59
166 3 0.02
168 7 0.04
169 7 0.04
170 54 0.31
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (169 bp):
ATATGATAAAAATTGTAATATAATAAAAAAATTTATTTAAAGATATAAAATTAATAAATAATATA
TTATCAAATCAACACATTATATGATAAAAATTATAATATAATAATAATATTTGTAATTTAAATAT
GAAAATTTAATAAATAATATATTGTCAAATCAACACAAT
Found at i:847442 original size:122 final size:121
Alignment explanation
Indices: 847299--847767 Score: 463
Period size: 122 Copynumber: 3.9 Consensus size: 121
847289 AAGAGAAGTT
* * * *
847299 GTGTCGGTCATTTGATTGCCAATACAAAAAAAAATTAGAACTTTTTTATTCGAGAAAAGGGGGTA
1 GTGTCGGTCATTTGATTGCCAACAC-CAAAAAAATTTGAA-TTTTTT-TTCGAGAAAAGGGGGTG
* *
847364 TCGGCCATTTGATGGCCAACAC-AAAAAAAATTGGAATTTTTTTCTCGAGAATAGGGG-
63 TCGGCCATTTGATGGCCAACACAAAAAAAAATTGAAATTTTTTTCTCGAGAAAAGGGGA
*
847421 GTGTCGGTCATTTGATGGCCAACACCAAAAAAATTTGAATTTTTTTTCTCGAGAAAAGGGGGTGT
1 GTGTCGGTCATTTGATTGCCAACACCAAAAAAATTTGAA-TTTTTTT-TCGAGAAAAGGGGGTGT
*
847486 CGGCCATTTGATGGCCAACACAAAAAAAAATTTGAAATTTTTTTCTTGAGAAAAGGGGA
64 CGGCCATTTGATGGCCAACACAAAAAAAAA-TTGAAATTTTTTTCTCGAGAAAAGGGGA
* * * * * * *
847545 GTGTCAGCCATTTGATTGCCAACACCCAAAAAATTTTGAATTTTTTTTTGA-AACAGCGAGTGTC
1 GTGTCGGTCATTTGATTGCCAACA-CCAAAAAAATTTGAATTTTTTTTCGAGAAAAGGGGGTGTC
* * * * * * *
847609 GGTCATTTGATGGTCAACACAAAAAAAAATT-AAATTTTTTTTTTGA-AACACGAG-
65 GGCCATTTGATGGCCAACACAAAAAAAAATTGAAATTTTTTTCTCGAGAAAAGGGGA
* *** * * * *
847663 GTGTCGGCCATGCAATGGCCAACACTC--AAAAATGT-AATTTTTTTTCTCAAGAAAAGGAGGTG
1 GTGTCGGTCATTTGATTGCCAACAC-CAAAAAAATTTGAA-TTTTTTT-TCGAGAAAAGGGGGTG
* * * * *
847725 TCGGCCATTTGATGACCTACAC-CAAAAAATTTTAAATTTTTTT
63 TCGGCCATTTGATGGCCAACACAAAAAAAAATTGAAATTTTTTT
847768 TTGAAACAGA
Statistics
Matches: 295, Mismatches: 42, Indels: 24
0.82 0.12 0.07
Matches are distributed among these distances:
115 2 0.01
116 13 0.04
117 11 0.04
118 55 0.19
119 5 0.02
120 15 0.05
121 57 0.19
122 68 0.23
123 27 0.09
124 28 0.09
125 14 0.05
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (121 bp):
GTGTCGGTCATTTGATTGCCAACACCAAAAAAATTTGAATTTTTTTTCGAGAAAAGGGGGTGTCG
GCCATTTGATGGCCAACACAAAAAAAAATTGAAATTTTTTTCTCGAGAAAAGGGGA
Found at i:847450 original size:61 final size:61
Alignment explanation
Indices: 847299--847753 Score: 428
Period size: 59 Copynumber: 7.5 Consensus size: 61
847289 AAGAGAAGTT
* * * * *
847299 GTGTCGGTCATTTGATTGCCAATACAAAAAAAAATTAGAACTTTTTTAT-TCGAGAAAAGGGG
1 GTGTCGGCCATTTGATGGCCAACACCAAAAAAAATTGGAA-TTTTTT-TCTCGAGAAAAGGGG
* *
847361 GTATCGGCCATTTGATGGCCAACA-CAAAAAAAATTGGAATTTTTTTCTCGAGAATAGGGG
1 GTGTCGGCCATTTGATGGCCAACACCAAAAAAAATTGGAATTTTTTTCTCGAGAAAAGGGG
* *
847421 GTGTCGGTCATTTGATGGCCAACACC-AAAAAAATTTGAATTTTTTTTCTCGAGAAAAGGGG
1 GTGTCGGCCATTTGATGGCCAACACCAAAAAAAATTGGAA-TTTTTTTCTCGAGAAAAGGGG
* * *
847482 GTGTCGGCCATTTGATGGCCAACACAAAAAAAAATTTGAAATTTTTTTCTTGAGAAAAGGGG
1 GTGTCGGCCATTTGATGGCCAACACCAAAAAAAA-TTGGAATTTTTTTCTCGAGAAAAGGGG
* * * * * * * * *
847544 AGTGTCAGCCATTTGATTGCCAACACCCAAAAAATTTTGAATTTTTTT-TTGA-AACAGCGA
1 -GTGTCGGCCATTTGATGGCCAACACCAAAAAAAATTGGAATTTTTTTCTCGAGAAAAGGGG
* * * * * * * * *
847604 GTGTCGGTCATTTGATGGTCAACACAAAAAAAAATT-AAATTTTTTTTTTGA-AACACGAG
1 GTGTCGGCCATTTGATGGCCAACACCAAAAAAAATTGGAATTTTTTTCTCGAGAAAAGGGG
*** * * *
847663 GTGTCGGCCATGCAATGGCCAACACTC---AAAAA-TGTAATTTTTTTTCTCAAGAAAAGGAG
1 GTGTCGGCCATTTGATGGCCAACAC-CAAAAAAAATTGGAA-TTTTTTTCTCGAGAAAAGGGG
* *
847722 GTGTCGGCCATTTGATGACCTACACCAAAAAA
1 GTGTCGGCCATTTGATGGCCAACACCAAAAAA
847754 TTTTAAATTT
Statistics
Matches: 324, Mismatches: 55, Indels: 29
0.79 0.13 0.07
Matches are distributed among these distances:
56 1 0.00
57 7 0.02
58 19 0.06
59 84 0.26
60 57 0.18
61 65 0.20
62 58 0.18
63 33 0.10
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (61 bp):
GTGTCGGCCATTTGATGGCCAACACCAAAAAAAATTGGAATTTTTTTCTCGAGAAAAGGGG
Found at i:847705 original size:58 final size:55
Alignment explanation
Indices: 847562--847803 Score: 175
Period size: 59 Copynumber: 4.1 Consensus size: 55
847552 CCATTTGATT
* * ***
847562 GCCAACACCCAAAAAATTTTGAA-TTTTTTTTTGAAACAGCGAGTGTCGGTCATTTGATG
1 GCCAACA-CCAAAAAA--TT-AATTTTTTTTTTGAAACAGAG-GTGTCGGCCATGCAATG
* *
847621 GTCAACACAAAAAAAAATTAAATTTTTTTTTTGAAACACGAGGTGTCGGCCATGCAATG
1 GCCAACAC--CAAAAAATT-AATTTTTTTTTTGAAACA-GAGGTGTCGGCCATGCAATG
* ***
847680 GCCAACACTC-AAAAATGTAATTTTTTTTCTCAAGAAA-AGGAGGTGTCGGCCATTTGATG
1 GCCAACAC-CAAAAAAT-TAATTTTTTTT-T--TGAAACA-GAGGTGTCGGCCATGCAATG
* * *
847739 ACCTACACCAAAAAATTTTAAATTTTTTTTTGAAACAGAGGGTGTCGGCCATGCAATG
1 GCCAACACCAAAAAA--TTAATTTTTTTTTTGAAACAGA-GGTGTCGGCCATGCAATG
847797 GCCAACA
1 GCCAACA
847804 TCCCAAATTT
Statistics
Matches: 145, Mismatches: 25, Indels: 27
0.74 0.13 0.14
Matches are distributed among these distances:
57 22 0.15
58 29 0.20
59 71 0.49
60 22 0.15
61 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (55 bp):
GCCAACACCAAAAAATTAATTTTTTTTTTGAAACAGAGGTGTCGGCCATGCAATG
Found at i:853091 original size:17 final size:17
Alignment explanation
Indices: 853061--853116 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
853051 CTCCTAAATT
* *
853061 TTAAATAAATTAAAAAA
1 TTAAAGAAAATAAAAAA
853078 TTAAAGAAAATAAAAAA
1 TTAAAGAAAATAAAAAA
*
853095 --AAGAGAAAATTAAAAGA
1 TTAA-AGAAAA-TAAAAAA
853112 TTAAA
1 TTAAA
853117 ACAAGCGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 2 0.06
16 6 0.19
17 21 0.66
18 1 0.03
19 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (17 bp):
TTAAAGAAAATAAAAAA
Found at i:853092 original size:16 final size:17
Alignment explanation
Indices: 853067--853116 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
853057 AATTTTAAAT
853067 AAATTAAAAAATTAAAGA
1 AAATT-AAAAATTAAAGA
*
853085 AAA-TAAAAA-AAAGAGA
1 AAATTAAAAATTAA-AGA
853101 AAATTAAAAGATTAAA
1 AAATTAAAA-ATTAAA
853117 ACAAGCGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
15 2 0.08
16 11 0.42
17 6 0.23
18 5 0.19
19 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (17 bp):
AAATTAAAAATTAAAGA
Found at i:863303 original size:10 final size:10
Alignment explanation
Indices: 863275--863307 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
863265 TAAAATATTG
863275 ATTATATAAA
1 ATTATATAAA
*
863285 AAT-TATAAA
1 ATTATATAAA
863294 ATTATATAAA
1 ATTATATAAA
863304 ATTA
1 ATTA
863308 CTTTAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATTATATAAA
Found at i:869032 original size:19 final size:18
Alignment explanation
Indices: 869004--869055 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
868994 GATATTTTAA
*
869004 AATAAATTAAAATGAAAAT
1 AATAATTTAAAAT-AAAAT
*
869023 AATAATTTAAATATTAAAT
1 AATAATTTAAA-ATAAAAT
869042 AATATATATTAAAA
1 AATA-AT-TTAAAA
869056 ATGAGGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 18 0.64
20 5 0.18
21 5 0.18
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AATAATTTAAAATAAAAT
Found at i:872163 original size:22 final size:22
Alignment explanation
Indices: 872133--872174 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
872123 CCACATGTAC
* * *
872133 TTCATAAAAAATATCTTAAAAA
1 TTCAAAAAAAAAATCATAAAAA
872155 TTCAAAAAAAAAATCATAAA
1 TTCAAAAAAAAAATCATAAA
872175 TTTCTTTACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (22 bp):
TTCAAAAAAAAAATCATAAAAA
Found at i:874687 original size:15 final size:15
Alignment explanation
Indices: 874667--874698 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
874657 TTAGCATTAC
874667 TTCTCAAAAGCACTT
1 TTCTCAAAAGCACTT
874682 TTCTCAAAAGCACTT
1 TTCTCAAAAGCACTT
874697 TT
1 TT
874699 AGGACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (15 bp):
TTCTCAAAAGCACTT
Found at i:878647 original size:2 final size:2
Alignment explanation
Indices: 878642--878672 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
878632 AAAAAAAAAA
878642 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
878673 GTTTTTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:890219 original size:29 final size:29
Alignment explanation
Indices: 890177--890236 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
890167 TTATTAAAAT
890177 TATAAAATTAGAATTAGAATATAATATAA
1 TATAAAATTAGAATTAGAATATAATATAA
*
890206 TATAATATTAGAATTAGAATATAATATAA
1 TATAAAATTAGAATTAGAATATAATATAA
890235 TA
1 TA
890237 CAAACAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (29 bp):
TATAAAATTAGAATTAGAATATAATATAA
Found at i:890234 original size:24 final size:23
Alignment explanation
Indices: 890189--890236 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
890179 TAAAATTAGA
*
890189 ATTAGAATATAATATAATATAAT
1 ATTAGAATAGAATATAATATAAT
890212 ATTAGAATTAGAATATAATATAAT
1 ATTAGAA-TAGAATATAATATAAT
890236 A
1 A
890237 CAAACAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (23 bp):
ATTAGAATAGAATATAATATAAT
Found at i:894117 original size:2 final size:2
Alignment explanation
Indices: 894110--894150 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
894100 TGAAATCAGC
894110 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
894151 CACTCACAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:906104 original size:21 final size:22
Alignment explanation
Indices: 906063--906106 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
906053 TGAATAATAA
906063 TTAATTAAATATGTCATAAATT
1 TTAATTAAATATGTCATAAATT
* *
906085 TTAATTAAA-ATTTTATAAATT
1 TTAATTAAATATGTCATAAATT
906106 T
1 T
906107 GTTCATTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTAATTAAATATGTCATAAATT
Found at i:915614 original size:18 final size:18
Alignment explanation
Indices: 915591--915627 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
915581 GGTAGTTAAA
* *
915591 TATTTGATTTATTCGAAT
1 TATTTGAGTTATTCAAAT
915609 TATTTGAGTTATTCAAAT
1 TATTTGAGTTATTCAAAT
915627 T
1 T
915628 GTAAAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (18 bp):
TATTTGAGTTATTCAAAT
Found at i:929673 original size:21 final size:20
Alignment explanation
Indices: 929632--929681 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 20
929622 ATTAATTTCA
929632 ATTTATTTAATTATTTATAAT
1 ATTT-TTTAATTATTTATAAT
929653 -TTGTTTTAATTTATTCT-TAAT
1 ATT-TTTTAA-TTATT-TATAAT
929674 ATTTTTTA
1 ATTTTTTA
929682 TAAACATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
20 7 0.28
21 15 0.60
22 3 0.12
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTTTTAATTATTTATAAT
Found at i:933709 original size:19 final size:18
Alignment explanation
Indices: 933686--933735 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
933676 TTTTAGAAAA
*
933686 TTTTAAAATTTTT-AACTT
1 TTTTATAATTTTTGAA-TT
*
933704 TCTTTATATTTTTTGAATT
1 T-TTTATAATTTTTGAATT
933723 TTTTATAATTTTT
1 TTTTATAATTTTT
933736 TTAAAAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 12 0.44
19 13 0.48
20 2 0.07
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTTATAATTTTTGAATT
Found at i:933766 original size:18 final size:17
Alignment explanation
Indices: 933745--933788 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
933735 TTTAAAAAAC
933745 TATAAATTTTAGAATATT
1 TATAAATTTTAGAA-ATT
*
933763 TATAAATATTTTGAAATT
1 TATAAAT-TTTAGAAATT
*
933781 TAAAAATT
1 TATAAATT
933789 ATTTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 16 0.70
19 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (17 bp):
TATAAATTTTAGAAATT
Found at i:933797 original size:18 final size:18
Alignment explanation
Indices: 933750--933798 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
933740 AAAACTATAA
*
933750 ATTTTAGAATATTTATAAAT
1 ATTTT-GAA-ATTTAAAAAT
933770 ATTTTGAAATTTAAAAATT
1 ATTTTGAAATTTAAAAA-T
933789 ATTTT-AAATT
1 ATTTTGAAATT
933799 ATTTTGTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 13 0.48
19 9 0.33
20 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
ATTTTGAAATTTAAAAAT
Found at i:946722 original size:13 final size:13
Alignment explanation
Indices: 946704--946730 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
946694 AGGACATCGT
946704 CAAGTAATATTAA
1 CAAGTAATATTAA
946717 CAAGTAATATTAA
1 CAAGTAATATTAA
946730 C
1 C
946731 GTCATTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (13 bp):
CAAGTAATATTAA
Done.