Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 116 of 444
Found at i:29652777 original size:20 final size:20
Alignment explanation
Indices: 29652746--29652786 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
29652736 TTGCACATAC
29652746 ATTTTTAGTAATTTTTATAAT
1 ATTTTTAGTAATTTTTA-AAT
29652767 ATTTTTA-TAATTTTTAAAT
1 ATTTTTAGTAATTTTTAAAT
29652786 A
1 A
29652787 AATGCTAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 9 0.45
21 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTTAGTAATTTTTAAAT
Found at i:29655616 original size:10 final size:10
Alignment explanation
Indices: 29655576--29655743 Score: 84
Period size: 10 Copynumber: 17.3 Consensus size: 10
29655566 TGTTTTATGA
*
29655576 TTTAGAATTT
1 TTTATAATTT
*
29655586 TTTAGAATTT
1 TTTATAATTT
*
29655596 TTTAGAATTT
1 TTTATAATTT
29655606 TTT-TAA-TT
1 TTTATAATTT
29655614 TTTAT-ATTT
1 TTTATAATTT
**
29655623 TTTATAAGGT
1 TTTATAATTT
29655633 TTTATAATTT
1 TTTATAATTT
* **
29655643 TTTTTAAAAT
1 TTTATAATTT
29655653 TTTA-AATATGT
1 TTTATAAT-T-T
29655664 TTTAT-ATGCTT
1 TTTATAAT--TT
*
29655675 TCT-TAATTT
1 TTTATAATTT
*
29655684 TATA-AATTT
1 TTTATAATTT
*
29655693 TTTATAA-TA
1 TTTATAATTT
* **
29655702 TCTATAAAAT
1 TTTATAATTT
* * *
29655712 TTGATGATGT
1 TTTATAATTT
29655722 TTTATAA-TT
1 TTTATAATTT
29655731 TTTATAATTT
1 TTTATAATTT
29655741 TTT
1 TTT
29655744 GTAAGTTCCA
Statistics
Matches: 119, Mismatches: 27, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
8 6 0.05
9 39 0.33
10 61 0.51
11 12 0.10
12 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (10 bp):
TTTATAATTT
Found at i:29655741 original size:8 final size:9
Alignment explanation
Indices: 29655584--29655798 Score: 71
Period size: 9 Copynumber: 22.7 Consensus size: 9
29655574 GATTTAGAAT
*
29655584 TTTTTAGAA
1 TTTTTATAA
*
29655593 TTTTTTAGAA
1 -TTTTTATAA
*
29655603 TTTTTTTAA
1 TTTTTATAA
*
29655612 TTTTTATAT
1 TTTTTATAA
29655621 TTTTTATAA
1 TTTTTATAA
*
29655630 GGTTTTATAA
1 -TTTTTATAA
*
29655640 TTTTTTTTAAA
1 -TTTTTAT-AA
* *
29655651 ATTTTAAATA
1 TTTTTATA-A
29655661 TGTTTTAT-A
1 T-TTTTATAA
29655670 TGCTTTCT-TAA
1 T--TTT-TATAA
29655681 -TTTTATAAA
1 TTTTTAT-AA
29655690 TTTTTTATAA
1 -TTTTTATAA
* *
29655700 TATCTATAAA
1 TTTTTAT-AA
* * *
29655710 ATTTGATGA
1 TTTTTATAA
29655719 TGTTTTATAA
1 T-TTTTATAA
29655729 TTTTTATAA
1 TTTTTATAA
*
29655738 TTTTTTGTAA
1 -TTTTTATAA
* **
29655748 GTTCCATAA
1 TTTTTATAA
* *
29655757 GTTTATGTCAA
1 -TTTTTAT-AA
*
29655768 -TTTTATTA
1 TTTTTATAA
29655776 TTTTTA-AA
1 TTTTTATAA
29655784 TTTTTATAA
1 TTTTTATAA
29655793 TTTTTA
1 TTTTTA
29655799 ATGATTTTTT
Statistics
Matches: 149, Mismatches: 38, Indels: 37
0.67 0.17 0.17
Matches are distributed among these distances:
7 1 0.01
8 12 0.08
9 63 0.42
10 56 0.38
11 17 0.11
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:29656338 original size:21 final size:21
Alignment explanation
Indices: 29656297--29656336 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
29656287 TTATATATAC
*
29656297 TATTATTAATGTATGTATTTA
1 TATTATTAATGTAAGTATTTA
*
29656318 TATTATTTAT-TAAGTATTT
1 TATTATTAATGTAAGTATTT
29656337 TACTGAGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TATTATTAATGTAAGTATTTA
Found at i:29664299 original size:17 final size:17
Alignment explanation
Indices: 29664285--29664317 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29664275 TTATATTAAG
29664285 TATGTTATTAAATTATA
1 TATGTTATTAAATTATA
*
29664302 TATTTTATTAAATTAT
1 TATGTTATTAAATTAT
29664318 GTTAAAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TATGTTATTAAATTATA
Found at i:29664854 original size:21 final size:21
Alignment explanation
Indices: 29664829--29664871 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
29664819 TAGCGGTCGT
29664829 GTGGCCACTTTCGAGTCTCTC
1 GTGGCCACTTTCGAGTCTCTC
29664850 GTGGCCACTTTCGAGTCTCTC
1 GTGGCCACTTTCGAGTCTCTC
29664871 G
1 G
29664872 CGGCTCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.33, G:0.26, T:0.33
Consensus pattern (21 bp):
GTGGCCACTTTCGAGTCTCTC
Found at i:29665094 original size:27 final size:27
Alignment explanation
Indices: 29665064--29665116 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
29665054 ACAATTTCAC
29665064 TTGGGTCCCAGCCC-TCATCAGAATCAA
1 TTGGG-CCCAGCCCATCATCAGAATCAA
* *
29665091 TTGGGCCTAGCCCATTATCAGAATCA
1 TTGGGCCCAGCCCATCATCAGAATCA
29665117 GTATCAGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (27 bp):
TTGGGCCCAGCCCATCATCAGAATCAA
Found at i:29668379 original size:19 final size:18
Alignment explanation
Indices: 29668345--29668388 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
29668335 TATTATATGA
* *
29668345 TTAATTAAGGTTAATTTAG
1 TTAATTAAGATCAA-TTAG
29668364 TTAATTAAGATCAATTAG
1 TTAATTAAGATCAATTAG
29668382 TT-ATTAA
1 TTAATTAA
29668389 TCTAAGTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.45
Consensus pattern (18 bp):
TTAATTAAGATCAATTAG
Found at i:29671312 original size:249 final size:249
Alignment explanation
Indices: 29670871--29671753 Score: 1204
Period size: 249 Copynumber: 3.6 Consensus size: 249
29670861 GTGTGTAATT
* * *
29670871 GACATCAACTCAAGATTGATGACAAAACTATGATAAACAATTTTAATC--TTTTTTTTAATTTTA
1 GACATCAACTCAAGATTGATGACAACACCATGATAAACAATTTTAATCTATTTTTTTTCATTTTA
* * *
29670934 ACATTGTACATATTTCATATGTTATTATTAATTAGTTTCAAACCATATATTTCGTTATCTATTGT
66 ACATTGTACATATTTCATGTGTTATTATTAATTAGTTTCAAACCATACATTTCATTATCTATTGT
* * * ** * *
29670999 ATGTTATATTTGAACACAGATTTGTGTTCAATTTTTTTTGTATTCACACGCATATGCGTGTGATA
131 ATGTTATTTTTAAACACACATTTGTGTTCAAAATTTTTTGTTTTCACACGCATATGCATGTGATA
* * * * **
29671064 AGAATTCTATTATATATAAATGTGTTTGATTGATTTGGTAACATAAGTTAACTC
196 AGAATTCTACTATATATTAATGTATTTGATTGAGTTGGTGTCATAAGTTAACTC
* * *
29671118 GACATCAACTCAAGATTGATGACAACATCATGATAAAAAATTTTAATTTATTTTTTTTCATTTTA
1 GACATCAACTCAAGATTGATGACAACACCATGATAAACAATTTTAATCTATTTTTTTTCATTTTA
** * * *
29671183 ACATCATACATGTTTCGTGTGTTATTATTAATTAATTTCAAACCATACATTTCATTATCTA-TGT
66 ACATTGTACATATTTCATGTGTTATTATTAATTAGTTTCAAACCATACATTTCATTATCTATTG-
* *
29671247 TCTGTTATTTTTAAACACACATTTGTGTTCAAAATTTTTTGTTTTCACACACATATGCATGTGAT
130 TATGTTATTTTTAAACACACATTTGTGTTCAAAATTTTTTGTTTTCACACGCATATGCATGTGAT
*
29671312 AA-AGATTCTACTATATATTAATGTATATGATTGAGTTGGTGTCATAAGTTAACTC
195 AAGA-ATTCTACTATATATTAATGTATTTGATTGAGTTGGTGTCATAAGTTAACTC
* * *
29671367 GACACCCACTCAAGATTGATGACAACACCATGATAAACAATTTTAATCTATTTTTTATTTATTTT
1 GACATCAACTCAAGATTGATGACAACACCATGATAAACAATTTTAATCTATTTTTT-TTCATTTT
* *
29671432 AACATTGTACATATTTCATGTGTTATTATTAATTATTTTCAAACCATACGTTTCATTATCTATTG
65 AACATTGTACATATTTCATGTGTTATTATTAATTAGTTTCAAACCATACATTTCATTATCTATTG
* * * *
29671497 TATGCTCTTTTTAATCACACATTTGTGTTCACAAA-TTTTTCTTTTCACACGCATATGCATGTGA
130 TATGTTATTTTTAAACACACATTTGTGTTCA-AAATTTTTTGTTTTCACACGCATATGCATGTGA
* * * *
29671561 TAGGGATTCTAGTATATATTAATGTATTTGATTTAGTTGGTGTCATAAGTTAACTC
194 TAAGAATTCTACTATATATTAATGTATTTGATTGAGTTGGTGTCATAAGTTAACTC
* * * * * **
29671617 GACATCCACTCAAGATTGATGCCAACACCATGATAACCATTTTTAACCTA-AATTTTTCAATTTT
1 GACATCAACTCAAGATTGATGACAACACCATGATAAACAATTTTAATCTATTTTTTTTC-ATTTT
* *
29671681 AACATTGTACATATTTCATGTGTTATTGTTAATTAGTTTCAAACCATAC-GTTCATTATCTATTG
65 AACATTGTACATATTTCATGTGTTATTATTAATTAGTTTCAAACCATACATTTCATTATCTATTG
29671745 TATGTTATT
130 TATGTTATT
29671754 ATTATTATTT
Statistics
Matches: 561, Mismatches: 66, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
247 43 0.08
248 26 0.05
249 275 0.49
250 212 0.38
251 5 0.01
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (249 bp):
GACATCAACTCAAGATTGATGACAACACCATGATAAACAATTTTAATCTATTTTTTTTCATTTTA
ACATTGTACATATTTCATGTGTTATTATTAATTAGTTTCAAACCATACATTTCATTATCTATTGT
ATGTTATTTTTAAACACACATTTGTGTTCAAAATTTTTTGTTTTCACACGCATATGCATGTGATA
AGAATTCTACTATATATTAATGTATTTGATTGAGTTGGTGTCATAAGTTAACTC
Found at i:29673739 original size:42 final size:42
Alignment explanation
Indices: 29673659--29673760 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
29673649 CAAGCTTTTA
* * * * *
29673659 TTTAACTCATATGAGTTTTCATTCAGCTCTATTGAGCTTCAG
1 TTTAACCCTTATGGGTTTCCATTCAGCTCTATTAAGCTTCAG
*
29673701 TTTAACCCTTATGGGTTTCCATTCAGCTCT-TATAAGCTTCCG
1 TTTAACCCTTATGGGTTTCCATTCAGCTCTAT-TAAGCTTCAG
*
29673743 TTCAA-CCTTATGGGTTTC
1 TTTAACCCTTATGGGTTTC
29673761 TATTTAGAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 14 0.27
42 38 0.73
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (42 bp):
TTTAACCCTTATGGGTTTCCATTCAGCTCTATTAAGCTTCAG
Found at i:29673774 original size:41 final size:42
Alignment explanation
Indices: 29673693--29673774 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 42
29673683 AGCTCTATTG
* **
29673693 AGCTTCAGTTTAACCCTTATGGGTTTCCATTCAGCTCTTATA
1 AGCTTCAGTTCAACCCTTATGGGTTTCCATTCAGAACTTATA
* * *
29673735 AGCTTCCGTTCAA-CCTTATGGGTTTCTATTTAGAACTTAT
1 AGCTTCAGTTCAACCCTTATGGGTTTCCATTCAGAACTTAT
29673775 GTGCTTCTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 23 0.68
42 11 0.32
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (42 bp):
AGCTTCAGTTCAACCCTTATGGGTTTCCATTCAGAACTTATA
Found at i:29673782 original size:21 final size:21
Alignment explanation
Indices: 29673749--29673788 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
29673739 TCCGTTCAAC
*
29673749 CTTATGGGTTTCTATTTAGAA
1 CTTATGGGCTTCTATTTAGAA
* *
29673770 CTTATGTGCTTCTGTTTAG
1 CTTATGGGCTTCTATTTAG
29673789 CCTTCGAGCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.12, G:0.20, T:0.50
Consensus pattern (21 bp):
CTTATGGGCTTCTATTTAGAA
Found at i:29676090 original size:16 final size:16
Alignment explanation
Indices: 29676069--29676100 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29676059 AGAATGGAGT
29676069 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
29676085 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
29676101 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:29679223 original size:2 final size:2
Alignment explanation
Indices: 29679216--29679253 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
29679206 GCTCTGTTCG
29679216 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29679254 GGGAAGGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29682616 original size:18 final size:18
Alignment explanation
Indices: 29682593--29682628 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
29682583 TTGTTACTGT
29682593 ATATGAATTGATCGACCC
1 ATATGAATTGATCGACCC
29682611 ATATGAATTGATCGACCC
1 ATATGAATTGATCGACCC
29682629 TGGGTCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (18 bp):
ATATGAATTGATCGACCC
Found at i:29687431 original size:42 final size:42
Alignment explanation
Indices: 29687342--29687452 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 42
29687332 TAGCTCTCAC
* * *
29687342 GAGCTTTTATTTAACTCATATGAGTTTCCGTTCAGCTCTATTA
1 GAGCTTTTGTTTAAC-CCTATGGGTTTCCGTTCAGCTCTATTA
*
29687385 -AGCTTTTGTTTAACCCTTATGGGTTTTCGTTCAGCT-T-TTA
1 GAGCTTTTGTTTAACCC-TATGGGTTTCCGTTCAGCTCTATTA
* *
29687425 TGAGCTTCTGTTCAACCCTATGGGTTTC
1 -GAGCTTTTGTTTAACCCTATGGGTTTC
29687453 TATTTAGCCC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
40 3 0.05
41 11 0.19
42 44 0.76
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (42 bp):
GAGCTTTTGTTTAACCCTATGGGTTTCCGTTCAGCTCTATTA
Found at i:29687463 original size:20 final size:21
Alignment explanation
Indices: 29687443--29687482 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
29687433 TGTTCAACCC
*
29687443 TATGGGTTTCTATTTAGCCCT
1 TATGGGCTTCTATTTAGCCCT
* *
29687464 TATGTGCTTCTGTTTAGCC
1 TATGGGCTTCTATTTAGCC
29687483 TTCGAGCTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.47
Consensus pattern (21 bp):
TATGGGCTTCTATTTAGCCCT
Found at i:29687949 original size:2 final size:2
Alignment explanation
Indices: 29687942--29687968 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
29687932 TCAACTTAGG
29687942 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
29687969 GTTGTTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29689297 original size:31 final size:32
Alignment explanation
Indices: 29689238--29689306 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
29689228 TTTTTTGGAC
* * * *
29689238 TTTCAAAATGCATAAAAAATGCCTTCAAATTT
1 TTTCAAAATACATAAAAAAGGCCCTCAAACTT
*
29689270 TTTCAAAA-ACATCAAAAAGGCCCTCAAACTT
1 TTTCAAAATACATAAAAAAGGCCCTCAAACTT
29689301 TTTCAA
1 TTTCAA
29689307 GATCAGTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 24 0.75
32 8 0.25
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.30
Consensus pattern (32 bp):
TTTCAAAATACATAAAAAAGGCCCTCAAACTT
Found at i:29689422 original size:21 final size:21
Alignment explanation
Indices: 29689397--29689438 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
29689387 CTTTGACTGC
29689397 TAACTTTAATAGTTGACCGTT
1 TAACTTTAATAGTTGACCGTT
29689418 TAACTTTAATAGTTGACCGTT
1 TAACTTTAATAGTTGACCGTT
29689439 AAAGTTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (21 bp):
TAACTTTAATAGTTGACCGTT
Found at i:29689446 original size:20 final size:21
Alignment explanation
Indices: 29689402--29689446 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
29689392 ACTGCTAACT
**
29689402 TTAATAGTTGACCGTTTAACT
1 TTAATAGTTGACCGTTTAAAG
29689423 TTAATAGTTGACCG-TTAAAG
1 TTAATAGTTGACCGTTTAAAG
29689443 TTAA
1 TTAA
29689447 CTTCCCCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (21 bp):
TTAATAGTTGACCGTTTAAAG
Found at i:29691118 original size:24 final size:25
Alignment explanation
Indices: 29691091--29691150 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
29691081 ATCCATTAAT
*
29691091 GGGAAGATCATACT-AGCTAATATC
1 GGGAAGATCATACTGAGCCAATATC
* *
29691115 GGGAAGTTCA-AGTGAGCCAATATC
1 GGGAAGATCATACTGAGCCAATATC
*
29691139 GGGAAGCTCATA
1 GGGAAGATCATA
29691151 AGAGTCATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 2 0.07
24 27 0.90
25 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.22
Consensus pattern (25 bp):
GGGAAGATCATACTGAGCCAATATC
Found at i:29691181 original size:49 final size:50
Alignment explanation
Indices: 29691105--29691227 Score: 130
Period size: 50 Copynumber: 2.5 Consensus size: 50
29691095 AGATCATACT
* * *
29691105 AGCTAATATCGGGAAG-TTCAAGTGAGCCAA-TATCGGGAAGCTC-ATAAG
1 AGCTATTATCGGGAAGCTCCAAGTGAGCCAATTATCGGAAAGCTCTA-AAG
*
29691153 AG-TCATTTATCGGGAAGCTCCAAG-GAGCCAATTATTGGAAAGCTCTAAAG
1 AGCT-A-TTATCGGGAAGCTCCAAGTGAGCCAATTATCGGAAAGCTCTAAAG
29691203 AGCTATTATTCGGGAAGCTCGCAAG
1 AGCTATTA-TCGGGAAGCTC-CAAG
29691228 AATCATATTG
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
47 1 0.02
48 3 0.05
49 20 0.32
50 33 0.52
51 6 0.10
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (50 bp):
AGCTATTATCGGGAAGCTCCAAGTGAGCCAATTATCGGAAAGCTCTAAAG
Found at i:29691187 original size:25 final size:25
Alignment explanation
Indices: 29691111--29691227 Score: 89
Period size: 25 Copynumber: 4.7 Consensus size: 25
29691101 TACTAGCTAA
*
29691111 TATCGGGAAG-TTCAAGTGAGCCAA-
1 TATCGGGAAGCTCCAAG-GAGCCAAT
* * *
29691135 TATCGGGAAGCT-CATAAGAGTCATT
1 TATCGGGAAGCTCCA-AGGAGCCAAT
29691160 TATCGGGAAGCTCCAAGGAGCCAAT
1 TATCGGGAAGCTCCAAGGAGCCAAT
* * * * *
29691185 TATTGGAAAGCTCTAAAGAG-CTAT
1 TATCGGGAAGCTCCAAGGAGCCAAT
29691209 TATTCGGGAAGCTCGCAAG
1 TA-TCGGGAAGCTC-CAAG
29691228 AATCATATTG
Statistics
Matches: 72, Mismatches: 15, Indels: 10
0.74 0.15 0.10
Matches are distributed among these distances:
24 22 0.31
25 46 0.64
26 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.23
Consensus pattern (25 bp):
TATCGGGAAGCTCCAAGGAGCCAAT
Found at i:29694126 original size:6 final size:6
Alignment explanation
Indices: 29694117--29694160 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
29694107 GAAGTCTAAG
* *
29694117 AAAATA AAAATA AACATA AAAACAA AAAATA AAAAT- AAAATA AA
1 AAAATA AAAATA AAAATA AAAA-TA AAAATA AAAATA AAAATA AA
29694161 TGGACTCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 5 0.16
6 22 0.69
7 5 0.16
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:29695812 original size:3 final size:3
Alignment explanation
Indices: 29695804--29695853 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
29695794 AGATATGATA
29695804 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29695852 AA
1 AA
29695854 AAGAAAATGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:29702487 original size:7 final size:7
Alignment explanation
Indices: 29702473--29702534 Score: 54
Period size: 7 Copynumber: 8.3 Consensus size: 7
29702463 ATTAAATTTT
29702473 AATA-AA
1 AATATAA
29702479 AATATAA
1 AATATAA
29702486 AATATTAAA
1 AATA-T-AA
29702495 AATTATAA
1 AA-TATAA
29702503 AATATAA
1 AATATAA
*
29702510 ATTATAAA
1 AATAT-AA
*
29702518 AATCGTAA
1 AAT-ATAA
29702526 AATATAA
1 AATATAA
29702533 AA
1 AA
29702535 AAATAAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
6 4 0.09
7 20 0.43
8 14 0.30
9 6 0.13
10 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (7 bp):
AATATAA
Found at i:29702503 original size:9 final size:9
Alignment explanation
Indices: 29702430--29702552 Score: 54
Period size: 10 Copynumber: 14.4 Consensus size: 9
29702420 AAATGTGACA
29702430 AAAAATTAT
1 AAAAATTAT
29702439 AAAAA--AT
1 AAAAATTAT
*
29702446 AAAAATCAAT
1 AAAAAT-TAT
*
29702456 AAAATTTATT
1 AAAAATTA-T
**
29702466 AAATTTTAAT
1 AAAAATT-AT
29702476 AAAAA-TAT
1 AAAAATTAT
29702484 -AAAA-TATT
1 AAAAATTA-T
29702492 AAAAATTAT
1 AAAAATTAT
29702501 -AAAA-TAT
1 AAAAATTAT
29702508 --AAATTAT
1 AAAAATTAT
**
29702515 AAAAATCGT
1 AAAAATTAT
29702524 -AAAA-TAT
1 AAAAATTAT
*
29702531 AAAAA-AAT
1 AAAAATTAT
29702539 AAAAATTTAT
1 AAAAA-TTAT
29702549 AAAA
1 AAAA
29702553 TGCATCAAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 27
0.70 0.09 0.21
Matches are distributed among these distances:
6 3 0.03
7 20 0.22
8 22 0.25
9 17 0.19
10 26 0.29
11 1 0.01
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:29702508 original size:24 final size:23
Alignment explanation
Indices: 29702477--29702553 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 23
29702467 AATTTTAATA
29702477 AAAATATAAAATATTAAAAATTAT
1 AAAATATAAAATA-TAAAAATTAT
* **
29702501 AAAATATAAATTATAAAAATCGT
1 AAAATATAAAATATAAAAATTAT
*
29702524 AAAATATAAAAAAATAAAAATTTAT
1 AAAATAT-AAAATATAAAAA-TTAT
29702549 AAAAT
1 AAAAT
29702554 GCATCAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 15 0.34
24 22 0.50
25 7 0.16
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (23 bp):
AAAATATAAAATATAAAAATTAT
Found at i:29702552 original size:16 final size:15
Alignment explanation
Indices: 29702473--29702552 Score: 65
Period size: 16 Copynumber: 5.1 Consensus size: 15
29702463 ATTAAATTTT
29702473 AATAAAAA-TATAAA
1 AATAAAAATTATAAA
29702487 ATATTAAAAATTAT-AA
1 A-A-TAAAAATTATAAA
*
29702503 AATATAAATTATAAA
1 AATAAAAATTATAAA
* *
29702518 AATCGTAAAATATAAAAA
1 AAT--AAAAAT-TATAAA
29702536 AATAAAAATTTATAAA
1 AATAAAAA-TTATAAA
29702552 A
1 A
29702553 TGCATCAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
14 10 0.19
15 7 0.13
16 19 0.37
17 8 0.15
18 8 0.15
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (15 bp):
AATAAAAATTATAAA
Found at i:29702812 original size:29 final size:30
Alignment explanation
Indices: 29702778--29702862 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
29702768 TCTTTAATTT
29702778 TTTTATAATTTTCTTATGA-ATTTATAGA-A
1 TTTTATAATTTT-TTATGATATTTATAGATA
* * *
29702807 TTTTATAATTTTTT-TCTATATTTCTATATA
1 TTTTATAATTTTTTAT-GATATTTATAGATA
*
29702837 TTTTATAATTTTTTATGATTTTTATA
1 TTTTATAATTTTTTATGATATTTATA
29702863 AATTAAGGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
27 1 0.02
28 3 0.07
29 19 0.41
30 22 0.48
31 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (30 bp):
TTTTATAATTTTTTATGATATTTATAGATA
Found at i:29702831 original size:40 final size:39
Alignment explanation
Indices: 29702733--29702821 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
29702723 TTTTGGAACG
* * *
29702733 ATAACTTTTTTA-ATTTTTTTTATGAATTTTAGATTTCT
1 ATAATTTTTTTATAATTTTCTTATGAATTTTAGATTTCT
*
29702771 TTAATTTTTTTATAATTTTCTTATGAATTTATAGAATTT-T
1 ATAATTTTTTTATAATTTTCTTATGAATTT-TAG-ATTTCT
29702811 ATAATTTTTTT
1 ATAATTTTTTT
29702822 CTATATTTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
38 10 0.23
39 15 0.35
40 14 0.33
41 4 0.09
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.64
Consensus pattern (39 bp):
ATAATTTTTTTATAATTTTCTTATGAATTTTAGATTTCT
Found at i:29707396 original size:21 final size:21
Alignment explanation
Indices: 29707370--29707410 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29707360 AGACAAGCGA
* *
29707370 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
29707391 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
29707411 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:29710909 original size:27 final size:26
Alignment explanation
Indices: 29710879--29710932 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
29710869 AGTACAAAAA
29710879 AAAATAATCA-AAATAATTATAAAATTT
1 AAAATAATCATAAA-AATTAT-AAATTT
* *
29710906 AAAATATTTATAAAAATTATAAATTT
1 AAAATAATCATAAAAATTATAAATTT
29710932 A
1 A
29710933 TATTTTTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.29
27 14 0.58
28 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
AAAATAATCATAAAAATTATAAATTT
Found at i:29710923 original size:19 final size:20
Alignment explanation
Indices: 29710878--29710985 Score: 71
Period size: 19 Copynumber: 5.2 Consensus size: 20
29710868 AAGTACAAAA
* *
29710878 AAAAATAATCAAAATAATTAT
1 AAAAATTAT-AAAATATTTAT
29710899 -AAAATT-TAAAATATTTAT
1 AAAAATTATAAAATATTTAT
*
29710917 AAAAATTATAAATTTATATTTTT
1 AAAAATTATAAA---ATATTTAT
29710940 GAGAAAATTATAAAA-ATTCTA-
1 -A-AAAATTATAAAATATT-TAT
* * *
29710961 AAAAATTCTAAAAAATATAT
1 AAAAATTATAAAATATTTAT
29710981 AAAAA
1 AAAAA
29710986 AATTTAAAAG
Statistics
Matches: 71, Mismatches: 6, Indels: 21
0.72 0.06 0.21
Matches are distributed among these distances:
18 10 0.14
19 20 0.28
20 17 0.24
21 3 0.04
22 2 0.03
23 7 0.10
24 1 0.01
25 11 0.15
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAATTATAAAATATTTAT
Found at i:29710957 original size:9 final size:10
Alignment explanation
Indices: 29710943--29710986 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
29710933 TATTTTTGAG
29710943 AAAATTAT-A
1 AAAATTATAA
*
29710952 AAAATTCTAA
1 AAAATTATAA
*
29710962 AAAATTCTAA
1 AAAATTATAA
29710972 AAAATATATAA
1 AAAAT-TATAA
29710983 AAAA
1 AAAA
29710987 ATTTAAAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 7 0.23
10 16 0.52
11 8 0.26
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAATTATAA
Found at i:29711978 original size:24 final size:24
Alignment explanation
Indices: 29711915--29711966 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
29711905 TTTCTAGAAG
* * *
29711915 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
29711939 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
29711963 ATTT
1 ATTT
29711967 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:29714246 original size:36 final size:37
Alignment explanation
Indices: 29714194--29714290 Score: 117
Period size: 37 Copynumber: 2.6 Consensus size: 37
29714184 ATAGGGTTTC
* *
29714194 CAAATTCACATTTCAATTCAATTTCACTTTTTCACTTT
1 CAAA-TCACAATTCAATTCAATTTCACTTTTCCACTTT
* *
29714232 C-AATCACAATTCAATTCAAAATTCACTTTTCCATTTT
1 CAAATCACAATTCAATTC-AATTTCACTTTTCCACTTT
29714269 CAAATCA-ATATTCAATTCAATT
1 CAAATCACA-ATTCAATTCAATT
29714291 CTGCACATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
36 13 0.25
37 23 0.45
38 15 0.29
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (37 bp):
CAAATCACAATTCAATTCAATTTCACTTTTCCACTTT
Found at i:29714601 original size:17 final size:18
Alignment explanation
Indices: 29714569--29714602 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29714559 AATTTCTTTT
29714569 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
29714587 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
29714603 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:29715061 original size:17 final size:18
Alignment explanation
Indices: 29715041--29715075 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
29715031 CTTTCTTCTC
*
29715041 TTCTTTTA-GTTTCTTTA
1 TTCTTTTATGTTTATTTA
29715058 TTCTTTTATGTTTATTTA
1 TTCTTTTATGTTTATTTA
29715076 ATTTATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.09, G:0.06, T:0.71
Consensus pattern (18 bp):
TTCTTTTATGTTTATTTA
Found at i:29726932 original size:33 final size:33
Alignment explanation
Indices: 29726890--29726957 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
29726880 GCAATTTGTT
29726890 CTCTATTTCTATTCCATTTCTACTCTATGGTTA
1 CTCTATTTCTATTCCATTTCTACTCTATGGTTA
*
29726923 CTCTATTTCTATTTCATTTCTACTCTATGGTTA
1 CTCTATTTCTATTCCATTTCTACTCTATGGTTA
29726956 CT
1 CT
29726958 TCAACAATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.53
Consensus pattern (33 bp):
CTCTATTTCTATTCCATTTCTACTCTATGGTTA
Found at i:29727655 original size:22 final size:22
Alignment explanation
Indices: 29727627--29727673 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
29727617 ACTAAGAGCC
29727627 AAGGTTAAGAGATATAGAAAGG
1 AAGGTTAAGAGATATAGAAAGG
*
29727649 AAGGTTAAGAGATATGGAAAGG
1 AAGGTTAAGAGATATAGAAAGG
29727671 AAG
1 AAG
29727674 ATAGAGCTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (22 bp):
AAGGTTAAGAGATATAGAAAGG
Found at i:29736612 original size:24 final size:24
Alignment explanation
Indices: 29736582--29736871 Score: 510
Period size: 24 Copynumber: 12.1 Consensus size: 24
29736572 GAATGTGACT
* *
29736582 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
29736606 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29736630 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29736654 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29736678 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29736702 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29736726 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29736750 ATA-TGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29736773 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29736797 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29736821 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29736845 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29736869 ATA
1 ATA
29736872 TGGTCTTTGC
Statistics
Matches: 261, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
23 23 0.09
24 238 0.91
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:29744604 original size:24 final size:24
Alignment explanation
Indices: 29744574--29744861 Score: 501
Period size: 24 Copynumber: 12.1 Consensus size: 24
29744564 GAATGTGACT
* *
29744574 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
29744598 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29744622 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29744646 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29744670 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29744694 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29744718 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29744741 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29744765 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29744788 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29744812 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29744836 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29744859 ATA
1 ATA
29744862 TGGTCTTTGC
Statistics
Matches: 259, Mismatches: 3, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
23 67 0.26
24 192 0.74
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:29744768 original size:71 final size:71
Alignment explanation
Indices: 29744574--29744861 Score: 506
Period size: 71 Copynumber: 4.0 Consensus size: 71
29744564 GAATGTGACT
* * *
29744574 ATAGCAAATCGCACACATAGTGCTATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACA
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGT-AATCGCACACA
29744639 TAGTGCC
65 TAGTGCC
*
29744646 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTGAATCGCACACA
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGT-AATCGCACACA
29744711 TAGTGCC
65 TAGTGCC
*
29744718 ATAGT-AATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAATCGCACACAT
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAATCGCACACAT
29744782 AGTGCC
66 AGTGCC
29744788 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAATCGCACACAT
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAATCGCACACAT
29744853 AGTGCC
66 AGTGCC
29744859 ATA
1 ATA
29744862 TGGTCTTTGC
Statistics
Matches: 209, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
70 23 0.11
71 114 0.55
72 72 0.34
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (71 bp):
ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAATCGCACACAT
AGTGCC
Found at i:29744883 original size:48 final size:47
Alignment explanation
Indices: 29744580--29744861 Score: 494
Period size: 47 Copynumber: 6.0 Consensus size: 47
29744570 GACTATAGCA
* *
29744580 AATCGCACACATAGTGCTATAGCAAATCGCACACATAGTGCCATAGT
1 AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGT
29744627 AAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGT
1 -AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGT
*
29744675 GAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGT
1 -AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGT
*
29744723 AATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGT
1 AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGT
29744770 AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGT
1 AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGT
29744817 AAATCGCACACATAGTGCCATAGT-AATCGCACACATAGTGCCATA
1 -AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATA
29744862 TGGTCTTTGC
Statistics
Matches: 228, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 114 0.50
48 114 0.50
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.21
Consensus pattern (47 bp):
AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGT
Found at i:29748259 original size:46 final size:46
Alignment explanation
Indices: 29748192--29748367 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
29748182 TGTAATCCGC
*
29748192 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
29748238 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* *
29748288 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
29748331 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
29748368 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:29748307 original size:93 final size:93
Alignment explanation
Indices: 29748199--29748370 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
29748189 CGCCCATAAG
* *
29748199 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
29748264 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
29748292 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
29748357 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
29748371 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:29752945 original size:24 final size:24
Alignment explanation
Indices: 29752915--29753204 Score: 510
Period size: 24 Copynumber: 12.1 Consensus size: 24
29752905 GAATGTGACT
* *
29752915 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
29752939 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29752963 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29752987 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29753011 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29753035 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29753059 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29753083 ATA-TGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29753106 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29753130 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29753154 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29753178 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29753202 ATA
1 ATA
29753205 TGGTCTTTGC
Statistics
Matches: 261, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
23 23 0.09
24 238 0.91
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:29760999 original size:24 final size:24
Alignment explanation
Indices: 29760969--29761257 Score: 501
Period size: 24 Copynumber: 12.1 Consensus size: 24
29760959 GAATGTGACT
* *
29760969 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
29760993 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29761017 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29761041 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29761065 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29761089 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29761113 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29761137 ATA-TGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29761160 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29761184 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29761207 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29761231 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29761255 ATA
1 ATA
29761258 TGGTCTTTGC
Statistics
Matches: 259, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
23 46 0.18
24 213 0.82
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:29764663 original size:46 final size:46
Alignment explanation
Indices: 29764596--29764771 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
29764586 TGTAATCCGC
*
29764596 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
29764642 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* *
29764692 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
29764735 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
29764772 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:29764711 original size:93 final size:93
Alignment explanation
Indices: 29764603--29764774 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
29764593 CGCCCATAAG
* *
29764603 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
29764668 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
29764696 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
29764761 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
29764775 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:29766483 original size:37 final size:37
Alignment explanation
Indices: 29766433--29766508 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
29766423 TTTCAAAAAT
*
29766433 AATATTATTTTAATAGT-TTAATATTAAATTAA-ATTA
1 AATATTATCTTAATAGTATT-ATATTAAATTAATATTA
* *
29766469 AATACTTATCTTAATAGTATTTTATTAATTTAATATTA
1 AATA-TTATCTTAATAGTATTATATTAAATTAATATTA
29766507 AA
1 AA
29766509 GTGATTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 4 0.12
37 22 0.65
38 8 0.24
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (37 bp):
AATATTATCTTAATAGTATTATATTAAATTAATATTA
Found at i:29767422 original size:18 final size:18
Alignment explanation
Indices: 29767399--29767433 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
29767389 TTCATTGCTT
29767399 TTCAAAAGCACTTCTGGC
1 TTCAAAAGCACTTCTGGC
29767417 TTCAAAAGCACTTCTGG
1 TTCAAAAGCACTTCTGG
29767434 AAGAAAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (18 bp):
TTCAAAAGCACTTCTGGC
Found at i:29768001 original size:13 final size:13
Alignment explanation
Indices: 29767985--29768050 Score: 96
Period size: 13 Copynumber: 5.1 Consensus size: 13
29767975 TTTAAACCGA
29767985 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
29767998 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
29768011 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
29768024 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
29768037 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
29768050 A
1 A
29768051 ATGAAGAACT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.36, C:0.29, G:0.08, T:0.27
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:29768024 original size:26 final size:26
Alignment explanation
Indices: 29767985--29768050 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
29767975 TTTAAACCGA
29767985 ACTTTTCAAAAGCACTTCTCAAAAGC
1 ACTTTTCAAAAGCACTTCTCAAAAGC
* *
29768011 ACTTTTCCACAGCACTTCTCAAAAGC
1 ACTTTTCAAAAGCACTTCTCAAAAGC
29768037 ACTTTTCAAAAGCA
1 ACTTTTCAAAAGCA
29768051 ATGAAGAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.36, C:0.29, G:0.08, T:0.27
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAAGC
Found at i:29769891 original size:62 final size:62
Alignment explanation
Indices: 29769792--29769916 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
29769782 ACTTAGTACC
*
29769792 TATAGTAAATTTTTCACATGGTCTTTCTACAAAGGTCCATACATTGCTTCTTTCAAATTGAT
1 TATAGTAAATTTTTCACATGGTCTTTCTACAAAGGTCCATACATTGCTTCTATCAAATTGAT
*
29769854 TATAGTAAATTTTTCACATGGTCTTTCTACAAGGGTCCATACATTGCTTCTATCAAATTGAT
1 TATAGTAAATTTTTCACATGGTCTTTCTACAAAGGTCCATACATTGCTTCTATCAAATTGAT
29769916 T
1 T
29769917 TAATTCCTCT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.42
Consensus pattern (62 bp):
TATAGTAAATTTTTCACATGGTCTTTCTACAAAGGTCCATACATTGCTTCTATCAAATTGAT
Found at i:29774277 original size:60 final size:60
Alignment explanation
Indices: 29774184--29774301 Score: 155
Period size: 60 Copynumber: 2.0 Consensus size: 60
29774174 CAGTCATTTA
* ** *
29774184 TCACCCCACGAACATGAGGATTAGTGCCCTGACCATTCAAATTATCATTCATACCTAGTT
1 TCACCCCACGAACAGGAGGATTAGCACCCTGACCATTCAAATTATCATTCAGACCTAGTT
* * * * *
29774244 TCACCCTACGAACAGGAGGATTAGCATCTTGACCATTCAGATTATCATTGAGACCTAG
1 TCACCCCACGAACAGGAGGATTAGCACCCTGACCATTCAAATTATCATTCAGACCTAG
29774302 ATCATTCCCG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (60 bp):
TCACCCCACGAACAGGAGGATTAGCACCCTGACCATTCAAATTATCATTCAGACCTAGTT
Found at i:29777417 original size:2 final size:2
Alignment explanation
Indices: 29777410--29777448 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
29777400 CATGGAAGTG
29777410 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29777449 GTAAGAACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:29779900 original size:9 final size:9
Alignment explanation
Indices: 29779875--29779941 Score: 53
Period size: 9 Copynumber: 7.2 Consensus size: 9
29779865 ATGTAAATTG
29779875 TAATATACA
1 TAATATACA
* *
29779884 TAACATACC
1 TAATATACA
29779893 TAATATACA
1 TAATATACA
* *
29779902 TATATAAATA
1 TA-ATATACA
29779912 GTAATATACA
1 -TAATATACA
**
29779922 TAACGTACA
1 TAATATACA
*
29779931 TGATATACA
1 TAATATACA
29779940 TA
1 TA
29779942 CTAATTTTTT
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
9 30 0.71
10 10 0.24
11 2 0.05
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.31
Consensus pattern (9 bp):
TAATATACA
Found at i:29779916 original size:38 final size:38
Alignment explanation
Indices: 29779858--29779941 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
29779848 AACACTACAC
* * *
29779858 ATACATAATGTAAATTGTAATATACATAACATACCTAAT
1 ATACAT-ATATAAATAGTAATATACATAACATACATAAT
* *
29779897 ATACATATATAAATAGTAATATACATAACGTACATGAT
1 ATACATATATAAATAGTAATATACATAACATACATAAT
29779935 ATACATA
1 ATACATA
29779942 CTAATTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 34 0.85
39 6 0.15
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (38 bp):
ATACATATATAAATAGTAATATACATAACATACATAAT
Found at i:29783215 original size:8 final size:8
Alignment explanation
Indices: 29783181--29783232 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
29783171 TAGTGATGTG
*
29783181 AATAATAA
1 AATATTAA
*
29783189 AGTATATAA
1 AATAT-TAA
29783198 AATA-TAA
1 AATATTAA
29783205 AATATTAA
1 AATATTAA
*
29783213 AATATCAA
1 AATATTAA
*
29783221 AATATTAG
1 AATATTAA
29783229 AATA
1 AATA
29783233 GTAATAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 23 0.64
9 6 0.17
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:29783222 original size:16 final size:15
Alignment explanation
Indices: 29783185--29783232 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
29783175 GATGTGAATA
*
29783185 ATAAAGTATATAAAAT
1 ATAAAATAT-TAAAAT
29783201 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
29783216 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
29783232 A
1 A
29783233 GTAATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:29783400 original size:20 final size:20
Alignment explanation
Indices: 29783343--29783402 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
29783333 AATACTACAT
29783343 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
29783362 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
29783385 AAATATGTACATAATATA
1 AAATATGTACATAATATA
29783403 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:29783500 original size:25 final size:25
Alignment explanation
Indices: 29783379--29783595 Score: 114
Period size: 25 Copynumber: 8.9 Consensus size: 25
29783369 TACGTGATAA
* *
29783379 TATTAAAAATATGTACATAATATAG
1 TATTAAAGATATATACATAATATAG
* * * *
29783404 TGTAAAAAATACATACATAATATA-
1 TATTAAAGATATATACATAATATAG
*
29783428 -ATTAAA-ATATATACATAAATAACATG
1 TATTAAAGATATATACAT-AAT-ATA-G
** * *
29783454 TAGAAAAAAAATATATAAATAATATAG
1 T--ATTAAAGATATATACATAATATAG
*
29783481 TATTAAAGATATATACATAAAATAG
1 TATTAAAGATATATACATAATATAG
* *
29783506 TA-TAATATATATATACGTAATATAG
1 TATTAA-AGATATATACATAATATAG
* * *
29783531 AATT-TAGA-ATATACCTAATATA-
1 TATTAAAGATATATACATAATATAG
* * *
29783553 T-TAAAAGA-ATATATATAATATAA
1 TATTAAAGATATATACATAATATAG
*
29783576 TATT-AAGAAATATA-ATAATA
1 TATTAAAGATATATACATAATA
29783596 ACAAAAAAAA
Statistics
Matches: 148, Mismatches: 30, Indels: 30
0.71 0.14 0.14
Matches are distributed among these distances:
21 1 0.01
22 24 0.16
23 31 0.21
24 13 0.09
25 58 0.39
26 1 0.01
27 2 0.01
28 2 0.01
29 7 0.05
30 9 0.06
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
TATTAAAGATATATACATAATATAG
Found at i:29783906 original size:16 final size:16
Alignment explanation
Indices: 29783868--29783906 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
29783858 AATCTCCAAA
*
29783868 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
29783884 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
29783900 AATAACT
1 AAAAACT
29783907 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:29783992 original size:16 final size:16
Alignment explanation
Indices: 29783970--29784024 Score: 85
Period size: 16 Copynumber: 3.4 Consensus size: 16
29783960 CTCCCCCCCC
29783970 CAAAAAAAAAACTTCT
1 CAAAAAAAAAACTTCT
*
29783986 TAAAAAAAAAACTTCT
1 CAAAAAAAAAACTTCT
29784002 CAAAAAAAAAAC-TCAT
1 CAAAAAAAAAACTTC-T
29784018 CAAAAAA
1 CAAAAAA
29784025 CCCCCTACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
15 2 0.06
16 34 0.94
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.16
Consensus pattern (16 bp):
CAAAAAAAAAACTTCT
Found at i:29785029 original size:94 final size:90
Alignment explanation
Indices: 29784822--29785158 Score: 341
Period size: 94 Copynumber: 3.7 Consensus size: 90
29784812 TTAAAAACAG
* * ** * * *
29784822 AAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
29784887 T-A-AAACA-AAATTTG-AAAAATAG
66 TGACAAACATAAA-TTGAAAAAAAAC
** ** *
29784909 ATTTTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAG-TGATTTT
1 AAATTGAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
29784973 TG-CAAAGCATAAATTGGAAAAAAAAAAC
66 TGACAAA-CATAAATT-G--AAAAAAAAC
* * *
29785001 ATCAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTTACCTCTCACAATATGAGTTGATT
1 A--AATTGAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
*
29785066 TTTTTGACAAACATAAATTGAAAAAAAAG
62 TTTTTGACAAACATAAATTGAAAAAAAAC
* *
29785095 AAATTGAAAATACCTCAGCGTGT--CCTC-AGGCTGAACTCACCTCTCGCAATATGAGTTGATTT
1 AAATTGAAAATACCTCGGCGTGTGACC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
29785157 TT
65 TT
29785159 TTGGAAAAAC
Statistics
Matches: 209, Mismatches: 26, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
86 8 0.04
87 50 0.24
88 9 0.04
89 4 0.02
90 31 0.15
92 28 0.13
94 57 0.27
95 3 0.01
96 1 0.00
97 14 0.07
98 4 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (90 bp):
AAATTGAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGACAAACATAAATTGAAAAAAAAC
Found at i:29785155 original size:90 final size:88
Alignment explanation
Indices: 29784814--29785180 Score: 318
Period size: 87 Copynumber: 4.0 Consensus size: 88
29784804 ACTAGACATT
* * * * *
29784814 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAG-ACGTG-TCCCAGGCTCAACTCACCTCTCGCAATATGAG
29784879 TTGATTTTT-A-AAACAAAATTTG-
64 TTGATTTTTGACAAACAAAATTTGA
* ** * * * *
29784901 AAAAATAGATTTTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAG-ACGTGTCCC-AGGCTCAACTCACCTCTCGCAATATGAG
*
29784966 -TGATTTTTG-CAAAGCATAAATTGGAAA
64 TTGATTTTTGACAAA-CA-AAATTTG--A
* * * * *
29784993 AAAAAAACATCAATTGAAAATACCTC-GGCGTGTGACCTGAGGCTCAACTTACCTCTCACAATAT
1 AAAAAAAGA--AATTGAAAATACCTCAGACGTGT--CC-CAGGCTCAACTCACCTCTCGCAATAT
29785057 GAGTTGATTTTTTTGACAAACATAAA-TTGA
61 GAGTTGA--TTTTTGACAAACA-AAATTTGA
*
29785087 AAAAAAAGAAATTGAAAATACCTCAG-CGTGTCCTCAGGCTGAACTCACCTCTCGCAATATGAGT
1 AAAAAAAGAAATTGAAAATACCTCAGACGTGTCC-CAGGCTCAACTCACCTCTCGCAATATGAGT
*
29785151 TGATTTTTTTGGAAAAACAAAATTTGA
65 TGA--TTTTT-GACAAACAAAATTTGA
29785178 AAA
1 AAA
29785181 TACCTCAGCG
Statistics
Matches: 230, Mismatches: 30, Indels: 36
0.78 0.10 0.12
Matches are distributed among these distances:
86 10 0.04
87 54 0.23
88 2 0.01
89 6 0.03
90 42 0.18
91 14 0.06
92 30 0.13
93 2 0.01
94 49 0.21
95 3 0.01
96 2 0.01
97 12 0.05
98 4 0.02
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (88 bp):
AAAAAAAGAAATTGAAAATACCTCAGACGTGTCCCAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGACAAACAAAATTTGA
Found at i:29785399 original size:73 final size:73
Alignment explanation
Indices: 29785252--29786075 Score: 851
Period size: 73 Copynumber: 11.0 Consensus size: 73
29785242 AACACAGAAA
* * * *
29785252 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
***
29785315 GCCAATTTTT
65 GTTGA-TTTT
* *
29785325 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTATTGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
29785390 GTTGA-TTT
65 GTTGATTTT
* * * * *
29785398 TTGACAAATAAAAATTGAAATTACCTCAGC-T-TCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
29785461 GCTGATTTTT
65 GTTGA-TTTT
29785471 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
29785536 GTTGA-TTT
65 GTTGATTTT
* * * * * * *
29785544 TTGACAAAAAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACCCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
29785609 GTTGATTTTT
65 GTTGA-TTTT
29785619 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
29785684 GTTGA-GTT
65 GTTGATTTT
* * * * * * *
29785692 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTTACCTTTTGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
29785757 CTTGATGTTT
65 GTTGAT-TTT
* *** * *
29785767 TTGAAAAATAGAAATTAAAGAACAGAAATGGAAAAC-ACCTCAGCATCTTGAGGTTCAACTCACC
1 TTG-AAAACAGAAATT---G---A-AAAT--ACCTCAACGT--G--TCTTGAGGCTCAACTCACC
**
29785831 TCTCGCAATATGACCTGATTTTT
52 TCTCGCAATATGAGTTGA-TTTT
* * *
29785854 TTGAAAGACAGAAATTGAAAACACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGG
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
29785919 GTTGA-TTT
65 GTTGATTTT
* * * *
29785927 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
29785990 GCTGATTTTT
65 GTTGA-TTTT
* * *
29786000 TTGAAAGACAGAAACTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACTTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
29786065 GTTGATTTT
65 GTTGATTTT
29786074 TT
1 TT
29786076 TTTTAAACAT
Statistics
Matches: 625, Mismatches: 87, Indels: 77
0.79 0.11 0.10
Matches are distributed among these distances:
71 69 0.11
72 8 0.01
73 248 0.40
74 15 0.02
75 214 0.34
76 2 0.00
77 1 0.00
78 3 0.00
79 2 0.00
80 3 0.00
81 2 0.00
82 3 0.00
83 2 0.00
84 3 0.00
85 1 0.00
86 3 0.00
87 45 0.07
88 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (73 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:29786300 original size:14 final size:13
Alignment explanation
Indices: 29786265--29786309 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
29786255 TTGATTTTTG
*
29786265 AAAAATAGAAATT
1 AAAAACAGAAATT
*
29786278 AAAAGCAGAAATT
1 AAAAACAGAAATT
29786291 GAAAAACAGAAATT
1 -AAAAACAGAAATT
29786305 AAAAA
1 AAAAA
29786310 TACCTCGGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:29786325 original size:100 final size:101
Alignment explanation
Indices: 29786101--29786381 Score: 415
Period size: 100 Copynumber: 2.8 Consensus size: 101
29786091 AGAAAAATGA
* *
29786101 AAATTTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTG
1 AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * * *
29786164 AAAAGCAGAATTTGTAAGGCAAAAATTGAAAAACAG
66 AAAAACAGAAATTGAAAAGCAAAAATTGAAAAACAG
* *
29786200 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTG
1 AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* *
29786265 AAAAATAGAAATT-AAAAGCAGAAATTGAAAAACAG
66 AAAAACAGAAATTGAAAAGCAAAAATTGAAAAACAG
* *
29786300 AAATTAAAAATACCTCGGCGTGCCCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* *
29786365 AAAAGCATAAATTGAAA
66 AAAAACAGAAATTGAAA
29786382 TTACCTCAGT
Statistics
Matches: 163, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
99 56 0.34
100 90 0.55
101 17 0.10
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (101 bp):
AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAACAGAAATTGAAAAGCAAAAATTGAAAAACAG
Found at i:29786387 original size:73 final size:74
Alignment explanation
Indices: 29786289--29786456 Score: 248
Period size: 73 Copynumber: 2.3 Consensus size: 74
29786279 AAAGCAGAAA
* * * *
29786289 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCTGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
29786354 GTTGA-TTT
66 GTTGATTTT
* * * * *
29786362 TTGAAAAGCATAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGA
1 TTGAAAAGCATAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
29786427 GTTGATTTT
66 GTTGATTTT
29786436 TTGAAAAGCATAAATTAAAAA
1 TTGAAAAGCATAAATTAAAAA
29786457 AACAAAAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
73 61 0.73
74 22 0.27
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (74 bp):
TTGAAAAGCATAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:29786556 original size:91 final size:89
Alignment explanation
Indices: 29786373--29786547 Score: 246
Period size: 91 Copynumber: 1.9 Consensus size: 89
29786363 TGAAAAGCAT
* * * **
29786373 AAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGTGTGACCTGAGGCCCAACTCACCTCTCACAATATGAGTTGATTTTTT
*
29786438 GAAAAGCATAAATTAAAAAAACAA
66 GAAAAGCAGAAATTAAAAAAACAA
29786462 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCACAATATGAGTTGATTTT
1 AAATTGAAAATACCTCA--GTGTGACCTGAGGCCCAACTCACCTCTCACAATATGAGTTGA-TTT
29786527 TTTG-AAAGACAGAAA-TAAAAA
63 TTTGAAAAG-CAGAAATTAAAAA
29786548 CATCAAAATA
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
89 16 0.21
91 48 0.63
92 12 0.16
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (89 bp):
AAATTGAAAATACCTCAGTGTGACCTGAGGCCCAACTCACCTCTCACAATATGAGTTGATTTTTT
GAAAAGCAGAAATTAAAAAAACAA
Found at i:29787416 original size:12 final size:13
Alignment explanation
Indices: 29787397--29787433 Score: 53
Period size: 11 Copynumber: 3.1 Consensus size: 13
29787387 TTGATCCCTC
29787397 TCTCTTTTTCTTT
1 TCTCTTTTTCTTT
29787410 T-TC-TTTTCTTT
1 TCTCTTTTTCTTT
29787421 TCTCTTTTT-TTT
1 TCTCTTTTTCTTT
29787433 T
1 T
29787434 AAGATGCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.41
12 8 0.36
13 5 0.23
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TCTCTTTTTCTTT
Found at i:29803230 original size:8 final size:8
Alignment explanation
Indices: 29803196--29803261 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 8
29803186 TAGTGATGTG
*
29803196 AATAATAA
1 AATATTAA
*
29803204 AGTATATAA
1 AATAT-TAA
29803213 AATA-TAA
1 AATATTAA
29803220 AATATTAA
1 AATATTAA
*
29803228 AATATCAA
1 AATATTAA
*
29803236 AATATTAG
1 AATATTAA
*
29803244 AATAATAA
1 AATATTAA
29803252 TAATAATTAA
1 -AAT-ATTAA
29803262 TATTGACAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
7 7 0.16
8 25 0.56
9 9 0.20
10 4 0.09
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (8 bp):
AATATTAA
Found at i:29803237 original size:16 final size:15
Alignment explanation
Indices: 29803200--29803261 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 15
29803190 GATGTGAATA
*
29803200 ATAAAGTATATAAAAT
1 ATAAAATAT-TAAAAT
29803216 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
29803231 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
29803247 AATAATAATAATTAA
1 -ATAA-AAT-ATTAA
29803262 TATTGACAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
15 8 0.21
16 22 0.56
17 5 0.13
18 4 0.10
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:29803396 original size:24 final size:22
Alignment explanation
Indices: 29803369--29803459 Score: 73
Period size: 24 Copynumber: 4.0 Consensus size: 22
29803359 AAATATGTAC
29803369 ATATATAAAAATATATACGTGATA
1 ATATATAAAAATATATAC-T-ATA
*
29803393 ATAT-TAAAAATATGTAC-ATA
1 ATATATAAAAATATATACTATA
*
29803413 ATATAGTGTAAAAATACATAC-ATA
1 ATATA---TAAAAATATATACTATA
*
29803437 ATATAATTAAAATATATAC-ATA
1 ATAT-ATAAAAATATATACTATA
29803459 A
1 A
29803460 GATGTAGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
20 7 0.12
22 15 0.26
23 12 0.21
24 22 0.39
25 1 0.02
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (22 bp):
ATATATAAAAATATATACTATA
Found at i:29803455 original size:22 final size:23
Alignment explanation
Indices: 29803374--29803511 Score: 100
Period size: 23 Copynumber: 5.7 Consensus size: 23
29803364 TGTACATATA
* *
29803374 TAAAAATATATACGTGATA-ATAT
1 TAAAAATATATACATAATATA-AT
* *
29803397 TAAAAATATGTACATAATATAGT
1 TAAAAATATATACATAATATAAT
*
29803420 GTAAAAATACATACATAATATAAT
1 -TAAAAATATATACATAATATAAT
* *
29803444 T-AAAATATATACATAAGATGTAGAAA
1 TAAAAATATATACAT-A-A--TATAAT
* *
29803470 AAAAAATATATAAATAATATAGTAT
1 TAAAAATATATACATAATATA--AT
*
29803495 TAAAGATATATACATAA
1 TAAAAATATATACATAA
29803512 AATAGTATAT
Statistics
Matches: 89, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
22 12 0.13
23 22 0.25
24 22 0.25
25 16 0.18
26 5 0.06
27 12 0.13
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
TAAAAATATATACATAATATAAT
Found at i:29803472 original size:46 final size:48
Alignment explanation
Indices: 29803399--29803517 Score: 118
Period size: 49 Copynumber: 2.4 Consensus size: 48
29803389 GATAATATTA
* * * *
29803399 AAAATATGTACATAATATAGTG-TAAAAATACATACATAATATA-ATT
1 AAAATATATACATAAGATAGTGAAAAAAATACATAAATAATATAGATT
*
29803445 AAAATATATACATAAGAT-GTAGAAAAAAAAATATATAAATAATATAGTATT
1 AAAATATATACATAAGATAGT-G--AAAAAAATACATAAATAATATAG-ATT
*
29803496 AAAGATATATACATAAAATAGT
1 AAA-ATATATACATAAGATAGT
29803518 ATATATATAT
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
45 2 0.03
46 17 0.29
49 18 0.31
51 6 0.10
52 14 0.24
53 2 0.03
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (48 bp):
AAAATATATACATAAGATAGTGAAAAAAATACATAAATAATATAGATT
Found at i:29803591 original size:24 final size:23
Alignment explanation
Indices: 29803564--29803615 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
29803554 AGAATATACC
*
29803564 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
29803588 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
29803611 TAATA
1 TAATA
29803616 ACAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:29804026 original size:21 final size:20
Alignment explanation
Indices: 29804000--29804045 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
29803990 TCTCCCCCCC
*
29804000 AAAAAAAAACTTATTCAAAAA
1 AAAAAAAAACTT-CTCAAAAA
29804021 AAAAAAAAACTTCTCAAAAA
1 AAAAAAAAACTTCTCAAAAA
29804041 AAAAA
1 AAAAA
29804046 CCTCAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAAAAAAACTTCTCAAAAA
Found at i:29804050 original size:14 final size:15
Alignment explanation
Indices: 29804020--29804055 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
29804010 TTATTCAAAA
29804020 AAAAAAAAAACTTCTC
1 AAAAAAAAAAC-TCTC
29804036 AAAAAAAAAAC-CTC
1 AAAAAAAAAACTCTC
29804050 AAAAAA
1 AAAAAA
29804056 CCCTACTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 9 0.45
16 11 0.55
ACGTcount: A:0.72, C:0.17, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAAAAAAACTCTC
Found at i:29807282 original size:31 final size:31
Alignment explanation
Indices: 29807242--29807301 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
29807232 AAACTTTAAA
29807242 TTTGATCACTACTATTAG-AATAATTTATTGT
1 TTTGATCACTACTATT-GCAATAATTTATTGT
* *
29807273 TTTGGTCACTACTGTTGCAATAATTTATT
1 TTTGATCACTACTATTGCAATAATTTATT
29807302 ATTTATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (31 bp):
TTTGATCACTACTATTGCAATAATTTATTGT
Found at i:29811580 original size:46 final size:46
Alignment explanation
Indices: 29811483--29811604 Score: 131
Period size: 46 Copynumber: 2.6 Consensus size: 46
29811473 CATCTCGTAG
* * *
29811483 CCGATGCATGTCCCAGACATGTCTTACATTAACTTACGTCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACATTAACTTACATCTCAAGA
* * *
29811529 TCGATGCATGTCCCAGACATGTCTTATATTATCAC-T-CATCTCAATA
1 CCGATGCATGTCCCAGACATGTCTTACATTA--ACTTACATCTCAAGA
*
29811575 CCGATGCTATGTTCCAGACATTGTCTTACA
1 CCGATGC-ATGTCCCAGACA-TGTCTTACA
29811605 CTGGCTCTCA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
46 41 0.65
47 12 0.19
48 10 0.16
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACATTAACTTACATCTCAAGA
Found at i:29813335 original size:25 final size:25
Alignment explanation
Indices: 29813301--29813350 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
29813291 ATCTAGTTTC
29813301 TTTTTATAATATCTATTTATTTCTA
1 TTTTTATAATATCTATTTATTTCTA
29813326 TTTTTATAATATCTATTTATTTCTA
1 TTTTTATAATATCTATTTATTTCTA
29813351 ATAAATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTTATAATATCTATTTATTTCTA
Found at i:29813342 original size:15 final size:15
Alignment explanation
Indices: 29813301--29813343 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
29813291 ATCTAGTTTC
29813301 TTTTTATAATATCTA
1 TTTTTATAATATCTA
29813316 --TTTAT--T-TCTA
1 TTTTTATAATATCTA
29813326 TTTTTATAATATCTA
1 TTTTTATAATATCTA
29813341 TTT
1 TTT
29813344 ATTTCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 4 0.17
11 1 0.04
12 5 0.22
13 5 0.22
14 1 0.04
15 7 0.30
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTATAATATCTA
Found at i:29820594 original size:44 final size:45
Alignment explanation
Indices: 29820531--29820737 Score: 136
Period size: 46 Copynumber: 4.5 Consensus size: 45
29820521 GCCGATGTTG
*
29820531 TGTCCCAAACATGGTCTTACACTGAC-ACATCTCGTA-GCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGACTACATCTCG-AGGCCGATGCA
* **
29820576 TGTCCCAGGCATGTCTTACACTGACTTATGTCTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGAC-TACATCTCGAGGCCGATGCA
* * * * * * **
29820622 TGTCCCAGACATGCCTTATATTATCACT-CGTCTCAATACCGATGCTA
1 TGTCCCAGACATGTCTTACA--CTGACTACATCTCGAGGCCGATGC-A
* ** **
29820669 TGTCCCAGACATTGTCTTACACTGGCT-C-TCATAATATGGCTAATGCA
1 TGTCCCAGACA-TGTCTTACACTGACTACATC-T-CGA-GGCCGATGCA
29820716 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
29820738 AGCTCACAAT
Statistics
Matches: 128, Mismatches: 24, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
44 13 0.10
45 13 0.10
46 61 0.48
47 26 0.20
48 15 0.12
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGACTACATCTCGAGGCCGATGCA
Found at i:29828041 original size:19 final size:21
Alignment explanation
Indices: 29827987--29828041 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
29827977 AACAAAGGAA
29827987 AATAAAAAAGAGGAAAGAAAAG
1 AATAAAAAAGA-GAAAGAAAAG
*
29828009 AA-AAAAAAGGAGAAA-AAAAT
1 AATAAAAAA-GAGAAAGAAAAG
29828029 AATAAAAAA-AGAA
1 AATAAAAAAGAGAA
29828042 TGGAGGAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 4 0.13
20 6 0.20
21 16 0.53
22 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (21 bp):
AATAAAAAAGAGAAAGAAAAG
Found at i:29830609 original size:38 final size:38
Alignment explanation
Indices: 29830525--29830732 Score: 272
Period size: 38 Copynumber: 5.4 Consensus size: 38
29830515 GAATCCAGTC
* * * *
29830525 ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
* *
29830565 ACCAGCACTAAGCCTGCGGGATGTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* * *
29830603 ACCAGCACGAAGCCTGCAGGATTTAACCCAGATATAGT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* *
29830641 ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAGT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* *
29830679 ACCAGCAAGAAGCCTGCGAGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
29830717 ACCAGCATGAAGCCTG
1 ACCAGCACGAAGCCTG
29830733 TGGACCTTTA
Statistics
Matches: 150, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
38 127 0.85
39 4 0.03
40 19 0.13
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:29830706 original size:114 final size:116
Alignment explanation
Indices: 29830525--29830732 Score: 321
Period size: 114 Copynumber: 1.8 Consensus size: 116
29830515 GAATCCAGTC
** *
29830525 ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAATACCAGCACTAAGCCTGCGGGATGTA
1 ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAATACCAGCAAGAAGCCTGCGAGATGTA
29830590 ACCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCAGATATAGT
66 ACCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCAGATATAGT
* * * * *
29830641 ACCAGCACGAAGCCTGCGGGA-TTTAA-CTCGGATATAGTACCAGCAAGAAGCCTGCGAGATTTA
1 ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAATACCAGCAAGAAGCCTGCGAGATGTA
*
29830704 ACCCGGATATAATACCAGCATGAAGCCTG
66 ACCCGGATATAATACCAGCACGAAGCCTG
29830733 TGGACCTTTA
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
114 59 0.71
115 5 0.06
116 19 0.23
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (116 bp):
ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAATACCAGCAAGAAGCCTGCGAGATGTA
ACCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCAGATATAGT
Found at i:29838521 original size:80 final size:80
Alignment explanation
Indices: 29838437--29838585 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
29838427 TATGGTAACC
* * * *
29838437 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
29838501 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
29838517 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
29838582 CCGG
66 CCGG
29838586 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:29838527 original size:40 final size:38
Alignment explanation
Indices: 29838478--29838585 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
29838468 ATCACGATTT
*
29838478 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
29838518 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
29838558 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
29838586 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:29841726 original size:38 final size:38
Alignment explanation
Indices: 29841646--29841893 Score: 318
Period size: 38 Copynumber: 6.5 Consensus size: 38
29841636 AAATCTAGTC
* * * *
29841646 ACCAGCACAAAACCTGCAGGACTTTAAGCTCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
* *
29841686 ACCAGCACTAAGCCTGCGGGATTTGACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* * *
29841724 ACCAGCACGAAG-CTGCGAGATTTAACTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* *
29841761 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAGT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* * * * *
29841799 ACCATCTCGAAGCCTGCAGGATTTAACTCGGATATAGT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
29841837 ACCGGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
29841875 ACCAGCACGAAGCCTGCGG
1 ACCAGCACGAAGCCTGCGG
29841894 ACCTTTAAGC
Statistics
Matches: 180, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
37 32 0.18
38 126 0.70
39 4 0.02
40 18 0.10
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.20
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:29841859 original size:76 final size:76
Alignment explanation
Indices: 29841646--29841891 Score: 352
Period size: 76 Copynumber: 3.2 Consensus size: 76
29841636 AAATCTAGTC
* * * *
29841646 ACCAGCACAAAACCTGCAGGACTTTAAGCTCGGATATAATACCAGCACTAAGCCTGCGGGATTTG
1 ACCAGCACGAAGCCTGCAGGA-TTTAA-CTCGGATATAATACCAGCACAAAGCCTGCGGGATTTA
29841711 ACCCGGATATAAT
64 ACCCGGATATAAT
*
29841724 ACCAGCACGAAG-CTGC-GAGATTTAACTCAGATATAATACCAGCACAAAGCCTGCGGGATTTAA
1 ACCAGCACGAAGCCTGCAG-GATTTAACTCGGATATAATACCAGCACAAAGCCTGCGGGATTTAA
*
29841787 CCCGGATATAGT
65 CCCGGATATAAT
* * * * *
29841799 ACCATCTCGAAGCCTGCAGGATTTAACTCGGATATAGTACCGGCACGAAGCCTGCGGGATTTAAC
1 ACCAGCACGAAGCCTGCAGGATTTAACTCGGATATAATACCAGCACAAAGCCTGCGGGATTTAAC
29841864 CCGGATATAAT
66 CCGGATATAAT
29841875 ACCAGCACGAAGCCTGC
1 ACCAGCACGAAGCCTGC
29841892 GGACCTTTAA
Statistics
Matches: 150, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
75 56 0.37
76 77 0.51
77 7 0.05
78 10 0.07
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (76 bp):
ACCAGCACGAAGCCTGCAGGATTTAACTCGGATATAATACCAGCACAAAGCCTGCGGGATTTAAC
CCGGATATAAT
Found at i:29842972 original size:8 final size:8
Alignment explanation
Indices: 29842961--29842992 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
29842951 TAATTAACTA
29842961 AACAATTT
1 AACAATTT
29842969 AACAATTT
1 AACAATTT
29842977 AACAATTT
1 AACAATTT
29842985 AACAATTT
1 AACAATTT
29842993 TCTTTAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (8 bp):
AACAATTT
Found at i:29847092 original size:42 final size:42
Alignment explanation
Indices: 29847032--29847113 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
29847022 AGCCCGAATC
29847032 GAACTTAAATGCTCACCCTCGTTCGTGTTCAGCAATACAATT
1 GAACTTAAATGCTCACCCTCGTTCGTGTTCAGCAATACAATT
*
29847074 GAACTTAAATGCTTACCCTCGTTCGTGTTCAGCAATACAA
1 GAACTTAAATGCTCACCCTCGTTCGTGTTCAGCAATACAA
29847114 GTACTTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
GAACTTAAATGCTCACCCTCGTTCGTGTTCAGCAATACAATT
Found at i:29847388 original size:15 final size:14
Alignment explanation
Indices: 29847345--29847390 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
29847335 TGGAGTTCTC
*
29847345 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAT
*
29847359 AAAAAGAACCAAAAT
1 AAAAAGAA-AAAAAT
29847374 AAAAAGAAGAAAAAT
1 AAAAAGAA-AAAAAT
29847389 AA
1 AA
29847391 TAGGCATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.04
Consensus pattern (14 bp):
AAAAAGAAAAAAAT
Found at i:29853887 original size:37 final size:36
Alignment explanation
Indices: 29853837--29853923 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
29853827 TACGAAGTCT
29853837 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
29853873 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
29853910 TCACCCGGAACATA
1 T-ACCCGG-ACATA
29853924 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:29854058 original size:49 final size:49
Alignment explanation
Indices: 29853992--29854241 Score: 448
Period size: 49 Copynumber: 5.1 Consensus size: 49
29853982 TTTACCACTT
* *
29853992 ATATATATTCACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
29854041 ATATATATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
29854090 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCC-TATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
29854138 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
29854187 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
29854236 ATATAT
1 ATATAT
29854242 TATTATGTAC
Statistics
Matches: 196, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
48 47 0.24
49 149 0.76
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:29854171 original size:97 final size:98
Alignment explanation
Indices: 29853992--29854241 Score: 448
Period size: 97 Copynumber: 2.6 Consensus size: 98
29853982 TTTACCACTT
* * *
29853992 ATATATATTCACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATACATTTTC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
*
29854057 ACATTCATCACGTCGGCCATTAGGCCTTATCAC
66 ACATTCATCACATCGGCCATTAGGCCTTATCAC
*
29854090 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATATACACTTTC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
29854154 ACATTCATCACATCGGCCATTAGGCCTTATCAC
66 ACATTCATCACATCGGCCATTAGGCCTTATCAC
29854187 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
29854242 TATTATGTAC
Statistics
Matches: 145, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
97 94 0.65
98 51 0.35
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (98 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:29861731 original size:57 final size:57
Alignment explanation
Indices: 29861604--29861747 Score: 157
Period size: 57 Copynumber: 2.5 Consensus size: 57
29861594 TTACTGACGA
* * * **
29861604 GATTTAGCCTGGACTAGTAATCCTGATATAATCCTTCTCGAGCATATGTTACAATTAG
1 GATTTAGCCTGGACT-GTAATCCTAATATAAGCCTTCTCGAGCATATATTACAAAAAG
* *
29861662 GATTTAGCCTGGACTGGTAATCCTAAT-TGAGCTCTTCT-GAGCATTTATTACAAAAAG
1 GATTTAGCCTGGACT-GTAATCCTAATATAAGC-CTTCTCGAGCATATATTACAAAAAG
* * *
29861719 GATTTATCCTGGACTATAATCCTATTATA
1 GATTTAGCCTGGACTGTAATCCTAATATA
29861748 TGTTATGAGG
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
56 9 0.12
57 33 0.46
58 30 0.42
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (57 bp):
GATTTAGCCTGGACTGTAATCCTAATATAAGCCTTCTCGAGCATATATTACAAAAAG
Found at i:29873876 original size:63 final size:63
Alignment explanation
Indices: 29873777--29873902 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
29873767 AGTAGTCTAC
* *
29873777 ATTTTGTATACCGAGGTTAGTTGTATGTAAAAAATACAACAACATTGTTATTATATGTGTTTA
1 ATTTTGTATACCGAGGTTAATTGTATGTAAAAAATACAACAACATTATTATTATATGTGTTTA
*
29873840 ATTTTGTATACCGAGGTTAATTTTATGTAAAAAATACAACAACATTATTATTATATGTGTTTA
1 ATTTTGTATACCGAGGTTAATTGTATGTAAAAAATACAACAACATTATTATTATATGTGTTTA
29873903 GTTTGATATG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (63 bp):
ATTTTGTATACCGAGGTTAATTGTATGTAAAAAATACAACAACATTATTATTATATGTGTTTA
Found at i:29874103 original size:47 final size:45
Alignment explanation
Indices: 29874035--29874295 Score: 164
Period size: 47 Copynumber: 5.6 Consensus size: 45
29874025 TTTGCGTGCT
* *
29874035 AGTGTAAGACATGTTTGGGACAT-GCATCGGCCACATTATGAGACCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG--ACATTATGAGAGCC
* *
29874081 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGACATT---ATGAGAGCC
* * *
29874129 AGTGTAAGACATGTCTGAGACAT-GCATCAG-CATCGA-GATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGACAT-TATGA-G--AGCC
* ** * *
29874175 AGTGTAAGACATGTTTGGGACAT-GCATCGGTTACAAAAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG--ACATTATGAGAGCC
* *
29874219 AGTGTAAGACCATGTCTGGGACTTGGGATC-GAC-TTGATGGATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGACATT-AT-GA-GAGCC
*
29874266 AGTGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACATGGCATC
29874296 AGCACTATAC
Statistics
Matches: 170, Mismatches: 25, Indels: 39
0.73 0.11 0.17
Matches are distributed among these distances:
43 6 0.04
44 13 0.08
45 17 0.10
46 53 0.31
47 56 0.33
48 23 0.14
49 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGACATTATGAGAGCC
Found at i:29874182 original size:46 final size:46
Alignment explanation
Indices: 29874035--29874202 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 46
29874025 TTTGCGTGCT
* * * * *
29874035 AGTGTAAGACATGTTTGGGACATGCATCGGCCA-C-ATTATGAGACCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CATCGA-GACGAGAGCC
* * *
29874081 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATCGAGACGAGAGCC
* *
29874129 AGTGTAAGACATGTCTGAGACATGCATCAGCATCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACG-AGAGCC
*
29874175 AGTGTAAGACATGTTTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
29874203 GGTTACAAAA
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 52 0.50
47 29 0.28
48 22 0.21
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACGAGAGCC
Found at i:29879795 original size:46 final size:45
Alignment explanation
Indices: 29879692--29879908 Score: 163
Period size: 46 Copynumber: 4.7 Consensus size: 45
29879682 GATTTGTGTA
* * * * *
29879692 CCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATTGAGACGAGGG
1 CCAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCA--CAGATGAGAG
*
29879740 CTAGTGTAAGACATGTCTAGGACATGCATCAGCCACAGTATGAGAG
1 CCAGTGTAAGACATGTCTAGGACATGCATCAGCCACAG-ATGAGAG
* * **
29879786 CCAGTGTAAGACATGTCTGGGACATGCATC-GACCTCGAGATGTTAG
1 CCAGTGTAAGACATGTCTAGGACATGCATCAG-CCAC-AGATGAGAG
* * * * * *
29879832 CCAATGTCAGACATGTCTAGGACATGCGTCGGCTA-AGA-GATGTG
1 CCAGTGTAAGACATGTCTAGGACATGCATCAGCCACAGATGA-GAG
* * *
29879876 CTAGTGTAAGACATGTCTGGGACATGCGTCAGC
1 CCAGTGTAAGACATGTCTAGGACATGCATCAGC
29879909 ACGGTTACAT
Statistics
Matches: 138, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
43 1 0.01
44 32 0.23
45 3 0.02
46 73 0.53
47 19 0.14
48 10 0.07
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (45 bp):
CCAGTGTAAGACATGTCTAGGACATGCATCAGCCACAGATGAGAG
Found at i:29879851 original size:92 final size:90
Alignment explanation
Indices: 29879692--29879902 Score: 235
Period size: 92 Copynumber: 2.3 Consensus size: 90
29879682 GATTTGTGTA
* * * * *
29879692 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGTC
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATCGAGACGAGAGCCAATGTAAGACATGTC
29879757 TAGGACATGCATCAGCCACAGTATGA-GAG
64 TAGGACATGCATCAGCCA-AG-A-GATGAG
* * ** *
29879786 CCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGTTAGCCAATGTCAGACATGTCTA
1 CCAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGACGAGAGCCAATGTAAGACATGTCTA
* * * *
29879851 GGACATGCGTCGGCTAAGAGATGTG
66 GGACATGCATCAGCCAAGAGATGAG
*
29879876 CTAGTGTAAGACATGTCTGGGACATGC
1 CCAGTGTAAGACATGTCTGGGACATGC
29879903 GTCAGCACGG
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
89 2 0.02
90 29 0.29
91 2 0.02
92 43 0.43
93 14 0.14
94 11 0.11
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (90 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGACGAGAGCCAATGTAAGACATGTCTA
GGACATGCATCAGCCAAGAGATGAG
Found at i:29884409 original size:40 final size:40
Alignment explanation
Indices: 29884335--29884480 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
29884325 CCGCACCAAG
* * * * * *
29884335 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
29884375 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
29884415 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
29884455 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
29884481 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:29884495 original size:40 final size:40
Alignment explanation
Indices: 29884367--29884518 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
29884357 ATCACGATTT
* * * * *
29884367 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
29884407 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
29884447 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
29884487 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
29884519 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:29892532 original size:40 final size:40
Alignment explanation
Indices: 29892458--29892603 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
29892448 CCGCACCAAG
* * * * * *
29892458 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
29892498 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
29892538 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
29892578 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
29892604 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:29892618 original size:40 final size:40
Alignment explanation
Indices: 29892490--29892641 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
29892480 ATCACGATTT
* * * * *
29892490 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
29892530 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
29892570 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
29892610 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
29892642 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:29902902 original size:47 final size:46
Alignment explanation
Indices: 29902834--29902999 Score: 167
Period size: 47 Copynumber: 3.6 Consensus size: 46
29902824 TCATTTGTGT
**
29902834 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACAAAATGAGA
* * * *
29902880 GCTAGTGTAATACCATGTCTGGGACATGGCATCGG-CATTAAGATGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCA-CAAAATGAGA
* * * * *
29902928 TCTAGTGTGAGACATGTCTGGGACATGTATTGGCTACAAAAT--GT
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACAAAATGAGA
*
29902972 GTTAGTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
29903000 GCATCGGCAC
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
44 10 0.10
45 15 0.15
46 20 0.20
47 31 0.32
48 22 0.22
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACAAAATGAGA
Found at i:29903005 original size:92 final size:93
Alignment explanation
Indices: 29902835--29903008 Score: 260
Period size: 92 Copynumber: 1.9 Consensus size: 93
29902825 CATTTGTGTG
** *
29902835 CTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCTAGTGTAATACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATTGGCCACAAAAT-AGAGCTAGTGTAAGACCATGTCT
29902900 GGGACATGGCATCGGCATTAAGATGAGAT
65 GGGACATGGCATCGGCATTAAGATGAGAT
* * * * *
29902929 CTAGTGTGAGACATGTCTGGGACATGTATTGGCTACAAAAT-GTGTTAGTGTAAGACCATGTCTG
1 CTAGTGTAAGACATGTCTGGGACATGCATTGGCCACAAAATAGAGCTAGTGTAAGACCATGTCTG
29902993 GGACATGGCATCGGCA
66 GGACATGGCATCGGCA
29903009 CGGATATGTG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 36 0.50
94 36 0.50
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (93 bp):
CTAGTGTAAGACATGTCTGGGACATGCATTGGCCACAAAATAGAGCTAGTGTAAGACCATGTCTG
GGACATGGCATCGGCATTAAGATGAGAT
Found at i:29903092 original size:47 final size:49
Alignment explanation
Indices: 29902975--29903106 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 49
29902965 AAAATGTGTT
* *
29902975 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGA-ATGTGAGAGCC
* * *
29903025 AATGTAACACCATGTCTAGGACATGGCATC-G-ACTTG-ATG-GATGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCAC-GGAATGTGA-GAGCC
* * *
29903072 AGTGTAAGACCATGTTTAGGACATAGCATCAGCAC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCAC
29903107 TATACCCTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
46 2 0.03
47 33 0.48
48 3 0.04
49 4 0.06
50 27 0.39
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGAATGTGAGAGCC
Found at i:29908041 original size:48 final size:48
Alignment explanation
Indices: 29907864--29908035 Score: 213
Period size: 48 Copynumber: 3.6 Consensus size: 48
29907854 CCTGATTTCC
*
29907864 AATATCATGGACC-AACGCCAAATCAATGAAGCTCGCACCCGAAGTGCT
1 AATATCATGGCCCGAA-GCCAAATCAATGAAGCTCGCACCCGAAGTGCT
* * **
29907912 AATATCATGGCTCGAAGCTAAATCAATGAAGCTCGCACTTGAAGTGCT
1 AATATCATGGCCCGAAGCCAAATCAATGAAGCTCGCACCCGAAGTGCT
* * * *
29907960 AATATCATGGCCCAAATCCAAATCAATGTAA-CTCACACCCAAAGTGCT
1 AATATCATGGCCCGAAGCCAAATCAATG-AAGCTCGCACCCGAAGTGCT
**
29908008 AATATCATCTCCCGAAGCCAAATCAATG
1 AATATCATGGCCCGAAGCCAAATCAATG
29908036 TAACTCGTAA
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
48 101 0.96
49 4 0.04
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.21
Consensus pattern (48 bp):
AATATCATGGCCCGAAGCCAAATCAATGAAGCTCGCACCCGAAGTGCT
Found at i:29910362 original size:40 final size:40
Alignment explanation
Indices: 29910317--29910562 Score: 259
Period size: 40 Copynumber: 6.2 Consensus size: 40
29910307 CGGAATACGA
*
29910317 CCGGATATAACCACAT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAAC-TCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
29910357 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
*
29910397 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
*
29910437 CC-GATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
29910476 CCGGATGTAGTC-ACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
** * ** * *
29910516 CCGGATATAATTAC-AGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
29910555 CCGGATAT
1 CCGGATAT
29910563 CATTCAATTG
Statistics
Matches: 179, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
39 68 0.38
40 110 0.61
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:29910545 original size:79 final size:80
Alignment explanation
Indices: 29910333--29910560 Score: 266
Period size: 79 Copynumber: 2.9 Consensus size: 80
29910323 ATAACCACAT
* * * *
29910333 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCC
* *
29910398 CGGATTTAACAACTC
66 CGGATGTAACAACTA
* * *
29910413 GCACGAATGCCTTCGGGTCTTAGCCC-GATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCC
*
29910477 CGGATGTAGTC-ACTA
66 CGGATGTA-ACAACTA
* ** * * *
29910492 GCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATTAC-AGCATAAATGTCTTCGGGACTTAGC
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
29910555 CCGGAT
65 CCGGAT
29910561 ATCATTCAAT
Statistics
Matches: 127, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
78 2 0.02
79 90 0.71
80 35 0.28
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCC
CGGATGTAACAACTA
Found at i:29918470 original size:33 final size:33
Alignment explanation
Indices: 29918428--29918493 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
29918418 ACTTGCACAA
29918428 ATGCCTTCGGGTATTAGCCCGGATTTAACAACT
1 ATGCCTTCGGGTATTAGCCCGGATTTAACAACT
*
29918461 ATGCCTTCGGGTCTTAGCCCGGATTTAACAACT
1 ATGCCTTCGGGTATTAGCCCGGATTTAACAACT
29918494 GCACGAATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (33 bp):
ATGCCTTCGGGTATTAGCCCGGATTTAACAACT
Found at i:29918515 original size:39 final size:38
Alignment explanation
Indices: 29918366--29918604 Score: 220
Period size: 40 Copynumber: 6.2 Consensus size: 38
29918356 CGGAATACAA
*
29918366 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAAC-TGCAC-AATGCCTTCGGGTCTTAGC
* * *
29918406 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAAC-TGCAC-AATGCCTTCGGGTCTTAGC
*
29918446 CCGGATTTAACAACT-----ATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTGCACAATGCCTTCGGGTCTTAGC
*
29918479 CCGGATTTAACAACTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTGCAC-AATGCCTTCGGGTCTTAGC
* * *
29918518 CCGGATGTAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACT-GCACAA-TGCCTTCGGGTCTTAGC
** * * * *
29918558 CCGGATATAATTACAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTGCA-CAATGCCTTCGGGTCTTAGC
29918597 CCGGATAT
1 CCGGATAT
29918605 CATTCAATTG
Statistics
Matches: 168, Mismatches: 20, Indels: 23
0.80 0.09 0.11
Matches are distributed among these distances:
33 32 0.19
39 57 0.34
40 79 0.47
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (38 bp):
CCGGATATAACAACTGCACAATGCCTTCGGGTCTTAGC
Found at i:29918518 original size:72 final size:73
Alignment explanation
Indices: 29918388--29918523 Score: 220
Period size: 72 Copynumber: 1.9 Consensus size: 73
29918378 ACATGCACGA
*
29918388 ATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCCCGGATT
1 ATGCCTTCGGGTCTTAGCCCGGATAGAACAACTTGCACAAATGCCTTCGGGTATTAGCCCGGATT
29918453 TAACAACT
66 TAACAACT
** * *
29918461 ATGCCTTCGGGTCTTAGCCCGGATTTAACAAC-TGCACGAATGCCTTCGGGTCTTAGCCCGGAT
1 ATGCCTTCGGGTCTTAGCCCGGATAGAACAACTTGCACAAATGCCTTCGGGTATTAGCCCGGAT
29918524 GTAGTCACTA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
72 29 0.50
73 29 0.50
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (73 bp):
ATGCCTTCGGGTCTTAGCCCGGATAGAACAACTTGCACAAATGCCTTCGGGTATTAGCCCGGATT
TAACAACT
Done.