Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 180 of 325
Found at i:58534975 original size:7 final size:7
Alignment explanation
Indices: 58534963--58534991 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
58534953 GGATAAGGGT
58534963 GTTAGTG
1 GTTAGTG
58534970 GTTAGTG
1 GTTAGTG
58534977 GTTAGTG
1 GTTAGTG
58534984 GTTAGTG
1 GTTAGTG
58534991 G
1 G
58534992 GGATGTTGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.45, T:0.41
Consensus pattern (7 bp):
GTTAGTG
Found at i:58536126 original size:7 final size:7
Alignment explanation
Indices: 58536114--58536159 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
58536104 ACATCTGATA
58536114 TGTTATC
1 TGTTATC
58536121 TGTTATC
1 TGTTATC
58536128 TGTTATC
1 TGTTATC
*
58536135 TGAT-TC
1 TGTTATC
*
58536141 TGATATC
1 TGTTATC
58536148 TGTT-TC
1 TGTTATC
58536154 TGTTAT
1 TGTTAT
58536160 GGACTTAGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 12 0.34
7 23 0.66
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.57
Consensus pattern (7 bp):
TGTTATC
Found at i:58538914 original size:585 final size:574
Alignment explanation
Indices: 58537745--58539101 Score: 1767
Period size: 585 Copynumber: 2.3 Consensus size: 574
58537735 TCTCTTGACC
* * * *
58537745 TCGTCTTGCCTATGATAACTTCCTAAGGTTGTCAAGCCTAGTAGTTTAAGCATACATAATGCATA
1 TCGTCTTGCCTATGATAACTTCCTAAGGTTGTCAAGCTTAGTGGTTTAAGCATACGTAATTCATA
* * *
58537810 CTAACTAATCCCTC-TCAAGAAACCCTAAATCTTTTCTTAATCACATCCCCATCCACTCGTTCAT
66 CTAACTAATCCCTCTTCAAGAAACCCTAAATC-CTTATTAATCACATCCCCATCCACTCGTTAAT
* * *
58537874 CTCCTCTAATGGATTTAGCCACTCATATTATTCATAATCGCTTTCTCGATTGAATAAATTAGGTG
130 CTCCTCTAAGGGATTTAGCCACTCATGTTATTCATAATCTCTTTCTCGATTGAATAAATTAGGTG
* ** **
58537939 AA-AAAATGATCGATTCAAAAGAGAAAAGAGAATGAATAATTGTGGATTTGATTGCGAAGTGCAA
195 AAGAAAATAATCGATTCAAAAGAGAAAAGAGAATGAATAATAATGGATTTGATCACGAAGTGCAA
* * * **
58538003 TCGACACCTCTTTTCCCTTAACAACCACTATAGAGATCATCTCGCCACACTGCTAGTGATTCTCC
260 TCGACACCTCTTTTCCCCTAACAACCACAAGAGAGATCATCTCGCCACACTGCTAGAAATTCTCC
* * **
58538068 CTAACTTTTAGAGGGCATGGTTTCATAAACTACTGGGTCAACCACAAGTTCAGTCGAGAAATTTG
325 CTAACTTTCAGAGGGCATGGATTCATAAACTACTACGTCAACCACAAGTTCAGTCGAGAAATTTG
* * * * *
58538133 TTCCAATGATGGAACTGTACCAACTCCCATATTTCATCGCAAGCAGTCATGTTGGGATCGAACCC
390 TTCCAATGATAGAACTGTACCAACTCCCATATTTCATCGCAAACAGTCATGATAGGATCGAACAC
** * **
58538198 ATGTTCTTGTATAAAAGATCGTCTACTCATTTAAACAAAAAACCGTTCGACTTCCGTATTATAGA
455 ACATTCTTGTATAAAAGATCGTCCACTCATTTAAACAAAAAAAAGTTCGACTTCCGTATTATAGA
** * *
58538263 AGTGATTGGCATCGATATTACTCGATGCTTGAGTGGATCGTTGTTGTTTTCGTGG
520 AACGATTGGCATCAAGATTACTCGATGCTTGAGTGGATCGTTGTTGTTTTCGTGG
* * *
58538318 TCATCTTGCCTATGATAAATTCCTAAGGTTGTCAAGCTTAGTGGTTTAGGCATACGTAATTCATA
1 TCGTCTTGCCTATGATAACTTCCTAAGGTTGTCAAGCTTAGTGGTTTAAGCATACGTAATTCATA
* * * *
58538383 CTAACTAATCCCTCTTCGA-AAACCCTAAATCCTCTATTAATCACATTCTCATCCACTCATTAAT
66 CTAACTAATCCCTCTTCAAGAAACCCTAAATCCT-TATTAATCACATCCCCATCCACTCGTTAAT
* *
58538447 CTCCTCTAAGGGTTTTAGCCACTCATGTTATTCATAATCTCTTTCTCGATTGAATAAATCAGGTG
130 CTCCTCTAAGGGATTTAGCCACTCATGTTATTCATAATCTCTTTCTCGATTGAATAAATTAGGTG
58538512 AAGAAAATAATCGATTCAAAAGAGAAAAGAGAATGGAATAATAATGGATTTGATCAC-AAGATGC
195 AAGAAAATAATCGATTCAAAAGAGAAAAGAGAAT-GAATAATAATGGATTTGATCACGAAG-TGC
*
58538576 AATCGACACCTCTTTTCCCCTAACAACCACAAGAGAGATCATCTCGCCACATTGCTAGAAATTCT
258 AATCGACACCTCTTTTCCCCTAACAACCACAAGAGAGATCATCTCGCCACACTGCTAGAAATTCT
* * * * * * *
58538641 CCTTATCTTTCAGGGAGGCGTAGGATTCATAAACTACTACGTTAACCGCCAGTTCAGTCGAGGTT
323 CCCTAACTTTCAGAG-GGCAT-GGATTCATAAACTACTACGTCAACCACAAGTTCAGTCGA----
* * *
58538706 GCGCAAAATTTGTTCCAATGATAGAACTGTACCAACTCTCATATTTCATGGTAAACAGTCATGAT
382 --G--AAATTTGTTCCAATGATAGAACTGTACCAACTCCCATATTTCATCGCAAACAGTCATGAT
* * **** *
58538771 AGGATCGAACACACATTCTTGTATAAATGATTGTCCACTCATTTGTTGAAAAAAAAGTTTGACTT
443 AGGATCGAACACACATTCTTGTATAAAAGATCGTCCACTCATTTAAACAAAAAAAAGTTCGACTT
* * *
58538836 TCGTATTATGGAAACGATTGGCATCAAGATTACTC-AGTGCTTGAGTGGATCGTTGTTGTTTTTG
508 CCGTATTATAGAAACGATTGGCATCAAGATTACTCGA-TGCTTGAGTGGATCGTTGTTGTTTTCG
58538900 TGG
572 TGG
* * * *
58538903 TCGTATTGCCTATGATAACTTTCT-AGCTTTGTCAAGCTTAGTGGTTTAAGCATACGTAATTTAT
1 TCGTCTTGCCTATGATAACTTCCTAAG-GTTGTCAAGCTTAGTGGTTTAAGCATACGTAATTCAT
* * * * *
58538967 ACTAATTATTCCC-ATTCAAGAAACCCTAAATCCTTCATTAATAACATCCCCATCCACTTGTTAA
65 ACTAACTAATCCCTCTTCAAGAAACCCTAAATCCTT-ATTAATCACATCCCCATCCACTCGTTAA
* * * *
58539031 TCTCC-CTTAAGCGATTTAGCCACTAATGTTATTCATGATCTCTTTCTCGATTGAATAACTTAGG
129 TCTCCTC-TAAGGGATTTAGCCACTCATGTTATTCATAATCTCTTTCTCGATTGAATAAATTAGG
58539095 TGAAGAA
193 TGAAGAA
58539102 CACGATCTAT
Statistics
Matches: 674, Mismatches: 90, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
572 1 0.00
573 171 0.25
574 36 0.05
575 91 0.14
576 4 0.01
577 33 0.05
583 1 0.00
584 9 0.01
585 328 0.49
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (574 bp):
TCGTCTTGCCTATGATAACTTCCTAAGGTTGTCAAGCTTAGTGGTTTAAGCATACGTAATTCATA
CTAACTAATCCCTCTTCAAGAAACCCTAAATCCTTATTAATCACATCCCCATCCACTCGTTAATC
TCCTCTAAGGGATTTAGCCACTCATGTTATTCATAATCTCTTTCTCGATTGAATAAATTAGGTGA
AGAAAATAATCGATTCAAAAGAGAAAAGAGAATGAATAATAATGGATTTGATCACGAAGTGCAAT
CGACACCTCTTTTCCCCTAACAACCACAAGAGAGATCATCTCGCCACACTGCTAGAAATTCTCCC
TAACTTTCAGAGGGCATGGATTCATAAACTACTACGTCAACCACAAGTTCAGTCGAGAAATTTGT
TCCAATGATAGAACTGTACCAACTCCCATATTTCATCGCAAACAGTCATGATAGGATCGAACACA
CATTCTTGTATAAAAGATCGTCCACTCATTTAAACAAAAAAAAGTTCGACTTCCGTATTATAGAA
ACGATTGGCATCAAGATTACTCGATGCTTGAGTGGATCGTTGTTGTTTTCGTGG
Found at i:58542673 original size:21 final size:21
Alignment explanation
Indices: 58542649--58542689 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58542639 AGTAAATTAA
58542649 GATTAACTAAAACTA-AAATAT
1 GATTAACTAAAA-TATAAATAT
*
58542670 GATTAATTAAAATATAAATA
1 GATTAACTAAAATATAAATA
58542690 AGTTTTGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (21 bp):
GATTAACTAAAATATAAATAT
Found at i:58543453 original size:16 final size:16
Alignment explanation
Indices: 58543432--58543464 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
58543422 ATCTTTAAAA
*
58543432 TTAAAATATTTATAAT
1 TTAAAAGATTTATAAT
58543448 TTAAAAGATTTATAAT
1 TTAAAAGATTTATAAT
58543464 T
1 T
58543465 ATTTGAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTAAAAGATTTATAAT
Found at i:58543918 original size:5 final size:5
Alignment explanation
Indices: 58543908--58543933 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
58543898 CTTAAGCATC
58543908 TTTCT TTTCT TTTCT TTTCT TTTCT T
1 TTTCT TTTCT TTTCT TTTCT TTTCT T
58543934 GTAATTACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:58546686 original size:23 final size:24
Alignment explanation
Indices: 58546660--58546712 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
58546650 TTGATAAAGC
*
58546660 AATAATAA-AATATTG-AGTAATTA
1 AATAATAATAACATTGAAGTAA-TA
*
58546683 AATAA-AATAACATTGAATTAATA
1 AATAATAATAACATTGAAGTAATA
58546706 AATAATA
1 AATAATA
58546713 TTATTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 2 0.08
23 18 0.72
24 5 0.20
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (24 bp):
AATAATAATAACATTGAAGTAATA
Found at i:58546736 original size:24 final size:24
Alignment explanation
Indices: 58546702--58546747 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
58546692 ACATTGAATT
*
58546702 AATAAATAATATTATTAAAATTTG
1 AATAAAAAATATTATTAAAATTTG
58546726 AATAAAAAATATTATTAAAATT
1 AATAAAAAATATTATTAAAATT
58546748 AATATAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
AATAAAAAATATTATTAAAATTTG
Found at i:58550221 original size:21 final size:21
Alignment explanation
Indices: 58550197--58550240 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
58550187 AATAGTTATA
*
58550197 AAATTATATTA-ATAATTATGT
1 AAATTAAATTATA-AATTATGT
58550218 AAATTAAATTATAAATTATGT
1 AAATTAAATTATAAATTATGT
58550239 AA
1 AA
58550241 TATTCTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
AAATTAAATTATAAATTATGT
Found at i:58552883 original size:14 final size:14
Alignment explanation
Indices: 58552864--58552898 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
58552854 ACATTTTTAT
58552864 TTCTAACGATACTA
1 TTCTAACGATACTA
58552878 TTCTAACGATACTA
1 TTCTAACGATACTA
58552892 TTCTAAC
1 TTCTAAC
58552899 ATGTAATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:58553818 original size:33 final size:32
Alignment explanation
Indices: 58553779--58553869 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 32
58553769 TCCCTAGAGC
*
58553779 CCGTATCCACCGCAGTATAGCAGTCTTCCT-GG
1 CCGTATCCACCGCAGTAT-GCACTCTTCCTAGG
* *
58553811 CCTGTATCCATCGCAGTACTTCACTCTTCCTAGG
1 CC-GTATCCACCGCAGTA-TGCACTCTTCCTAGG
*
58553845 TCGTATCCACCGCAGTATGGCACTC
1 CCGTATCCACCGCAGTAT-GCACTC
58553870 CTACCGGCTC
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
32 3 0.06
33 42 0.86
34 4 0.08
ACGTcount: A:0.19, C:0.35, G:0.19, T:0.27
Consensus pattern (32 bp):
CCGTATCCACCGCAGTATGCACTCTTCCTAGG
Found at i:58554559 original size:18 final size:18
Alignment explanation
Indices: 58554536--58554570 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
58554526 ACGTGGCAAT
58554536 CCAACTAGATTTTAAGTG
1 CCAACTAGATTTTAAGTG
*
58554554 CCAACTTGATTTTAAGT
1 CCAACTAGATTTTAAGT
58554571 ATATCTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (18 bp):
CCAACTAGATTTTAAGTG
Found at i:58559742 original size:21 final size:23
Alignment explanation
Indices: 58559711--58559754 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
58559701 ACCTGATCAG
58559711 AATACGACACAT-AAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
58559733 AATAC-ACACATAAAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
58559755 TCAGTAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (23 bp):
AATACGACACATAAAGTGCCTGA
Found at i:58559970 original size:23 final size:24
Alignment explanation
Indices: 58559944--58560038 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
58559934 AAATGTCCAA
58559944 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
58559967 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
58559995 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
58560024 CCAAAACACACCAGA
1 CCAAAACACACCAGA
58560039 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:58560040 original size:29 final size:28
Alignment explanation
Indices: 58559958--58560041 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
58559948 AACACACCAG
* *
58559958 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
58559986 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
58560014 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
58560042 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:58563137 original size:37 final size:37
Alignment explanation
Indices: 58563096--58563174 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
58563086 TTATTACGAA
* * *
58563096 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
58563133 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
58563170 GTCTT
1 GTCTT
58563175 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:58563364 original size:47 final size:47
Alignment explanation
Indices: 58563293--58563452 Score: 257
Period size: 47 Copynumber: 3.4 Consensus size: 47
58563283 CCCTTCGGGA
* * * *
58563293 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
58563340 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
58563387 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
58563434 CTTATCACATATATACACT
1 CTTATCACATATATACACT
58563453 CACATCACAA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 105 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:58563371 original size:25 final size:25
Alignment explanation
Indices: 58563343--58563421 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
58563333 ACTCGGCCCT
58563343 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
58563368 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
58563390 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
58563415 ATCACAT
1 ATCACAT
58563422 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:58572463 original size:21 final size:21
Alignment explanation
Indices: 58572426--58572470 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
58572416 GAGGGATCAA
*
58572426 ATGCTGGAGTCCGAGAAAAAC
1 ATGCTGGAATCCGAGAAAAAC
*
58572447 ATGCTGGAATCAC-AGAACAAC
1 ATGCTGGAATC-CGAGAAAAAC
58572468 ATG
1 ATG
58572471 ATAAGCCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (21 bp):
ATGCTGGAATCCGAGAAAAAC
Found at i:58578836 original size:79 final size:80
Alignment explanation
Indices: 58578694--58578873 Score: 206
Period size: 79 Copynumber: 2.3 Consensus size: 80
58578684 TACTCGTTCA
* * *
58578694 AATGCCTTCGGGACATAGCCTGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
58578759 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* **
58578774 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGTCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
58578836 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
58578853 AAAGCCTTCGGGACTTAGCCC
1 AATGCCTTCGGGACTTAGCCC
58578874 AGACATCATT
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
78 4 0.05
79 57 0.67
80 24 0.28
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:58578870 original size:40 final size:40
Alignment explanation
Indices: 58578673--58578873 Score: 214
Period size: 40 Copynumber: 5.0 Consensus size: 40
58578663 CGGAATTTAA
** *
58578673 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
58578713 CTGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58578753 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58578792 CCGGA-ATTAGTAACTCGCACAAATGTCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
58578832 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
58578872 CC
1 CC
58578874 AGACATCATT
Statistics
Matches: 134, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.24
40 88 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:58583725 original size:24 final size:24
Alignment explanation
Indices: 58583697--58583757 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
58583687 AATCGTATTT
* * *
58583697 GCACACATAGTGCTA-ATTACACTC
1 GCACACATAGTGCCATAGTAAAC-C
58583721 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
58583745 GCACACATAGTGC
1 GCACACATAGTGC
58583758 ATTGGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:58584296 original size:18 final size:20
Alignment explanation
Indices: 58584273--58584311 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
58584263 GGTCATCATG
*
58584273 TTTTCA-TTCA-ACACATTT
1 TTTTCACTTCATAAACATTT
58584291 TTTTCACTTCATAAACATTT
1 TTTTCACTTCATAAACATTT
58584311 T
1 T
58584312 GACCGTATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTCACTTCATAAACATTT
Found at i:58586813 original size:85 final size:85
Alignment explanation
Indices: 58586700--58587001 Score: 473
Period size: 85 Copynumber: 3.6 Consensus size: 85
58586690 AAAGATACAA
58586700 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCACCGAGCAGTG
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCACCGAGCAGTG
58586765 GTGGAGCAGGTCGAAGACTC
66 GTGGAGCAGGTCGAAGACTC
* * * *
58586785 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTATAGATCTGGGCTTACCGAACAATG
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCACCGAGCAGTG
*
58586850 GTGGAGCAAGTCGAAGACTC
66 GTGGAGCAGGTCGAAGACTC
* * *
58586870 GCCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAATTTACAGATCCT-GGTTCTCCGAGCAGT
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGAT-CTGGGCTCACCGAGCAGT
*
58586934 GGTGGAGCAGGTCGAAGACCC
65 GGTGGAGCAGGTCGAAGACTC
* **
58586955 GTCTTAACCCTTTAAGCAGTAGGGTAACAGGCTAAAA-TTACAGATCT
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCT
58587002 TATCTTCGCT
Statistics
Matches: 198, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
83 2 0.01
84 8 0.04
85 186 0.94
86 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (85 bp):
GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCACCGAGCAGTG
GTGGAGCAGGTCGAAGACTC
Found at i:58587016 original size:85 final size:85
Alignment explanation
Indices: 58586616--58587017 Score: 429
Period size: 85 Copynumber: 4.7 Consensus size: 85
58586606 TCAGCAAGCT
* * ** * * * *
58586616 TTAACTCCCTAAGCAATAGGGTAACAACCTGAAGA-TTACAGATCTTATC-TCCCTAAGCAATAG
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAATTTACAGATCTTAGCTTCCC-GAGCAATGG
* *
58586679 TGGAGCAGATCAAAGA-TACAAGCC
64 TGGAGCAGGTCGAAGACT-C--GCC
** *
58586703 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGC-TCACCGAGCAGTGGT
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTAGCTTC-CCGAGCAATGGT
58586767 GGAGCAGGTCGAAGACTCGCC
65 GGAGCAGGTCGAAGACTCGCC
* ** * *
58586788 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTATAGATCTGGGCTTACCGAACAATGGTG
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTAGCTTCCCGAGCAATGGTG
*
58586853 GAGCAAGTCGAAGACTCGCC
66 GAGCAGGTCGAAGACTCGCC
* * * *
58586873 TTAACCCCCTAAGCAATAGGGTAACAGGCTAAAATTTACAGATCCT-GGTTCTCCGAGCAGTGGT
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTAGCTTC-CCGAGCAATGGT
* *
58586937 GGAGCAGGTCGAAGACCCGTC
65 GGAGCAGGTCGAAGACTCGCC
** * *
58586958 TTAACCCTTTAAGCAGTAGGGTAACAGGCTAAAA-TTACAGATCTTATCTTCGCTGAGCAA
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTAGCTTC-CCGAGCAA
58587018 GAGCGGAGCA
Statistics
Matches: 271, Mismatches: 38, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
84 13 0.05
85 191 0.70
86 4 0.01
87 60 0.22
88 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (85 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTAGCTTCCCGAGCAATGGTG
GAGCAGGTCGAAGACTCGCC
Found at i:58587312 original size:17 final size:15
Alignment explanation
Indices: 58587290--58587325 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
58587280 AATCTCTAAG
58587290 CCCAATACACCCAATAA
1 CCCAATAC-CCCAA-AA
58587307 CCCAATACCCCAAAA
1 CCCAATACCCCAAAA
58587322 CCCA
1 CCCA
58587326 CCTAAACCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.44, C:0.47, G:0.00, T:0.08
Consensus pattern (15 bp):
CCCAATACCCCAAAA
Found at i:58589149 original size:126 final size:125
Alignment explanation
Indices: 58588933--58589161 Score: 381
Period size: 126 Copynumber: 1.8 Consensus size: 125
58588923 TTCTCAATTG
* * *
58588933 TTTTTAAAATAATGGCAATGTTTGGTATTTAAAGAATTCAAAGGATTGTGCCCTAACGTACTGGG
1 TTTTTAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGGATCGTGCCCTAACGTACTGGG
58588998 TTTCGCTTTCTTTGTTTGTCTTGAATA-TCAGAATATCCCTTTACCGGTTCACTCTCAAAA
66 TTTCGCTTTCTTTGTTTGTCTTGAATATTC-GAATATCCCTTTACCGGTTCACTCTCAAAA
58589058 TTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAGAA-GATCGTGCCCTAACGTACTG
1 TTTTT-AAAATAAAGGCAATGTTCGGTATTTAAAGAATTCA-AAGGATCGTGCCCTAACGTACTG
*
58589122 GGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCC
64 GGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCC
58589162 TCTTAAAGCT
Statistics
Matches: 97, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
125 5 0.05
126 88 0.91
127 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.39
Consensus pattern (125 bp):
TTTTTAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGGATCGTGCCCTAACGTACTGGG
TTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCCTTTACCGGTTCACTCTCAAAA
Found at i:58590627 original size:27 final size:27
Alignment explanation
Indices: 58590597--58590648 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
58590587 GATAATAGTC
*
58590597 CATTTCTAACAATATCAAATTTATTGT
1 CATTTCTAACAATATCAAATATATTGT
58590624 CATTTCTAACAATATCAAATATATT
1 CATTTCTAACAATATCAAATATATT
58590649 AAAATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.42
Consensus pattern (27 bp):
CATTTCTAACAATATCAAATATATTGT
Found at i:58590662 original size:27 final size:27
Alignment explanation
Indices: 58590598--58590655 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
58590588 ATAATAGTCC
* ***
58590598 ATTTCTAACAATATCAAATTTATTGTC
1 ATTTCTAACAATATCAAATATATTAAA
58590625 ATTTCTAACAATATCAAATATATTAAA
1 ATTTCTAACAATATCAAATATATTAAA
58590652 ATTT
1 ATTT
58590656 TTTACAAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (27 bp):
ATTTCTAACAATATCAAATATATTAAA
Found at i:58590858 original size:18 final size:19
Alignment explanation
Indices: 58590830--58590865 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
58590820 AAAATTACCT
58590830 TTTCTTTTCTTTCTTCTCA
1 TTTCTTTTCTTTCTTCTCA
58590849 TTTC-TTTCTTTCTTCTC
1 TTTCTTTTCTTTCTTCTC
58590866 TTCTCTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTCTTTTCTTTCTTCTCA
Found at i:58590872 original size:18 final size:19
Alignment explanation
Indices: 58590831--58590872 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
58590821 AAATTACCTT
58590831 TTCT-TTTCTTTCTTCTCA
1 TTCTCTTTCTTTCTTCTCA
58590849 TT-TCTTTCTTTCTTCTC-
1 TTCTCTTTCTTTCTTCTCA
58590866 TTCTCTT
1 TTCTCTT
58590873 CTCCCTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (19 bp):
TTCTCTTTCTTTCTTCTCA
Found at i:58591064 original size:27 final size:27
Alignment explanation
Indices: 58590998--58591083 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 27
58590988 CTCTGACAAC
** * *
58590998 CCCTCCACTAGTGCCACCTCTAGCATG
1 CCCTCCACCGGTGCCGCCTCTGGCATG
*
58591025 CCCTCCACTGGTGCCGCCTCTGGCATG
1 CCCTCCACCGGTGCCGCCTCTGGCATG
* * * *
58591052 CCTTCCACCGGTGTCGCCTCTGACAAG
1 CCCTCCACCGGTGCCGCCTCTGGCATG
58591079 CCCTC
1 CCCTC
58591084 AACCATTCTT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.13, C:0.45, G:0.20, T:0.22
Consensus pattern (27 bp):
CCCTCCACCGGTGCCGCCTCTGGCATG
Found at i:58593611 original size:23 final size:23
Alignment explanation
Indices: 58593585--58593629 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
58593575 TTTTAAAAGG
58593585 TTAAAATATAATTTTATTATTTA
1 TTAAAATATAATTTTATTATTTA
* * *
58593608 TTAAATTTTTATTTTATTATTT
1 TTAAAATATAATTTTATTATTT
58593630 TTGAAGGGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTAAAATATAATTTTATTATTTA
Found at i:58595989 original size:23 final size:22
Alignment explanation
Indices: 58595958--58596002 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
58595948 GCAGATTTTC
*
58595958 TTTTATTATCATTTTCTAGAAAT
1 TTTTATTAT-AATTTCTAGAAAT
* *
58595981 TTTTCTTATAATTTGTAGAAAT
1 TTTTATTATAATTTCTAGAAAT
58596003 ACTTATCATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (22 bp):
TTTTATTATAATTTCTAGAAAT
Found at i:58596953 original size:2 final size:2
Alignment explanation
Indices: 58596946--58596972 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
58596936 TGTTTACGTT
58596946 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
58596973 TCTAAACTAA
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:58598499 original size:20 final size:20
Alignment explanation
Indices: 58598474--58598512 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58598464 TGTGAAGTTT
*
58598474 ATTGATGAGCATTTTATATA
1 ATTGATGAACATTTTATATA
*
58598494 ATTGATGAATATTTTATAT
1 ATTGATGAACATTTTATAT
58598513 TTGAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.49
Consensus pattern (20 bp):
ATTGATGAACATTTTATATA
Found at i:58602010 original size:24 final size:24
Alignment explanation
Indices: 58601981--58602034 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
58601971 TGCTTTTGAC
58601981 CATTTTTCAATACTTAGAATTTTG
1 CATTTTTCAATACTTAGAATTTTG
*
58602005 TATTTTTCAATACTTAGAATTTTG
1 CATTTTTCAATACTTAGAATTTTG
58602029 CATTTT
1 CATTTT
58602035 GTATCTTGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.54
Consensus pattern (24 bp):
CATTTTTCAATACTTAGAATTTTG
Found at i:58602646 original size:149 final size:150
Alignment explanation
Indices: 58602453--58602727 Score: 374
Period size: 149 Copynumber: 1.8 Consensus size: 150
58602443 ATTATTGTTG
* **
58602453 TTGTTGAATATGTTCTACATATGGTACGAGAAAGATCTATTTTTATAT-ATGGTTGCCATTGCAG
1 TTGTTGAATATGCTCTACATATGGTACGAGAAAGATCTATTTTTAT-TCATGGTTGCCATTAAAG
* * * * * *
58602517 TAAGTTGGTATTAATTTTATTGTATTCT-TTTTTATTAAAAATTGCTAAAATCGTTAAAATTATT
65 TAAGCTAGTATTAATTTTACTGGATTCTCTTTTTATTAAAAATTACTAAAATAGTTAAAATTATT
58602581 ATGTTAGTACTGTTGTTACGT
130 ATGTTAGTACTGTTGTTACGT
* * * * *
58602602 TTGTTGAATATGCTCTACATATGTTATGAGCAAGTTCTGTTTTTATTCATGGTTGCCATTAAAGT
1 TTGTTGAATATGCTCTACATATGGTACGAGAAAGATCTATTTTTATTCATGGTTGCCATTAAAGT
* * *
58602667 AAGCTAGTATTAATTTTACTGGATTCTCTTTTTATTAAGAATTATTGAAATAGTTAAAATT
66 AAGCTAGTATTAATTTTACTGGATTCTCTTTTTATTAAAAATTACTAAAATAGTTAAAATT
58602728 GTTTGTAATG
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
148 1 0.01
149 78 0.73
150 28 0.26
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.46
Consensus pattern (150 bp):
TTGTTGAATATGCTCTACATATGGTACGAGAAAGATCTATTTTTATTCATGGTTGCCATTAAAGT
AAGCTAGTATTAATTTTACTGGATTCTCTTTTTATTAAAAATTACTAAAATAGTTAAAATTATTA
TGTTAGTACTGTTGTTACGT
Found at i:58607068 original size:21 final size:23
Alignment explanation
Indices: 58607024--58607068 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
58607014 CAATATTCCG
*
58607024 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATAATCT
58607047 GGTGTGTTTGGG-TGGA-AATCT
1 GGTGTGTTTGGGTTGGATAATCT
58607068 G
1 G
58607069 CGTATTTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 4 0.19
23 12 0.57
ACGTcount: A:0.11, C:0.04, G:0.42, T:0.42
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATAATCT
Found at i:58615608 original size:53 final size:54
Alignment explanation
Indices: 58615540--58615855 Score: 316
Period size: 55 Copynumber: 5.9 Consensus size: 54
58615530 TTTCCTTTTT
* * * * *
58615540 GAACTTACCATTGCCATGTCTTGACATGGTCGTACGTAGTATCCTTGCCTTAT-
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
58615593 GAACTAACCAATGCCATGCCTAGGCATGGTCTTACATGGGA-CCTATGCCTTATA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCT-TGCCTTATA
* ** * *
58615647 CTAACTTATTAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTAT-
1 -GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
58615701 GAACTCACCAATGCCACGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* * * * * *
58615755 GTAACTCATCAATGCCATGTCTTGACATGATCTTACATGATTTCCTTGCCTTATA
1 G-AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
58615810 GAACTTATCATTGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
58615856 ATCTTACCAA
Statistics
Matches: 214, Mismatches: 41, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
52 4 0.02
53 82 0.38
54 40 0.19
55 84 0.39
56 4 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (54 bp):
GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:58615730 original size:108 final size:108
Alignment explanation
Indices: 58615551--58615908 Score: 437
Period size: 108 Copynumber: 3.4 Consensus size: 108
58615541 AACTTACCAT
* * * *
58615551 TGCCATGTCTTGACATGGTCGTACGTAGTATCCTTGCCTTATGAACTAACCAATGCCATGCCTAG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTAACCAATGCCATGCCTTG
* *
58615616 GCATGGTCTTACATGGGACCTATGCCTTATACTAACTTATTAA
66 GCATGGTCTTACATGGGACCTATGCCTTATACTAACTCATCAA
* * *
58615659 TGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAACTCACCAATGCCACGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTAACCAATGCCATGCCTTG
* *
58615724 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGGGACCTATGCCTTATACTAACTCATCAA
* * * * * *
58615767 TGCCATGTCTTGACATGATCTTACATGATTTCCTTGCCTTATAGAACTTATCATTGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTAACCAATGCCATGCCTT
*
58615832 GGCATGGTCTTACAT--GA--TAT-CCTTAT-CTTAC-CA--AA
65 GGCATGGTCTTACATGGGACCTATGCCTTATACTAACTCATCAA
*** *
58615867 TGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTA
1 TGCCATG-TCTTGACATGGTCTTACATGGTATCCTTGCCTTA
58615909 CCAAATGCCA
Statistics
Matches: 219, Mismatches: 29, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
100 9 0.04
101 27 0.12
102 2 0.01
103 3 0.01
104 6 0.03
105 2 0.01
107 2 0.01
108 135 0.62
109 33 0.15
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (108 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTAACCAATGCCATGCCTTG
GCATGGTCTTACATGGGACCTATGCCTTATACTAACTCATCAA
Found at i:58615887 original size:47 final size:47
Alignment explanation
Indices: 58615834--58615955 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
58615824 CATGCCTTGG
* *
58615834 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
58615881 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
58615928 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
58615956 GTGCCAATGC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:58617925 original size:6 final size:6
Alignment explanation
Indices: 58617867--58617917 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
58617857 GAATAAGTAG
* * * * *
58617867 AAATAA AACTGA AACTAA AAATAA AAATAA AAATTA AAATTA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
58617915 AAA
1 AAA
58617918 AAATAAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:58617930 original size:18 final size:19
Alignment explanation
Indices: 58617884--58617930 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
58617874 ACTGAAACTA
*
58617884 AAAATAAA-AATAAAAATT
1 AAAATAAATAATAAAAAAT
58617902 AAAATTAAAATAA-AAAAAAT
1 AAAA-T-AAATAATAAAAAAT
58617922 AAAATAAAT
1 AAAATAAAT
58617931 GGACTCAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 8 0.32
19 2 0.08
20 13 0.52
21 2 0.08
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAATAAATAATAAAAAAT
Found at i:58619582 original size:15 final size:17
Alignment explanation
Indices: 58619553--58619590 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
58619543 AACTTTGATT
58619553 AATAATAATGGAAAT-A
1 AATAATAATGGAAATAA
58619569 AATAATAA-GGAAATAA
1 AATAATAATGGAAATAA
58619585 AATAAT
1 AATAAT
58619591 TTAACTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.24
Consensus pattern (17 bp):
AATAATAATGGAAATAA
Found at i:58620210 original size:21 final size:21
Alignment explanation
Indices: 58620186--58620229 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
58620176 CACGCCCGTG
* *
58620186 TGGCCTCTGTTTAGCTTGTGT
1 TGGCCTCTGTTCAGCCTGTGT
58620207 TGGCCTCTGTTCAGCCTGTGT
1 TGGCCTCTGTTCAGCCTGTGT
58620228 TG
1 TG
58620230 ATTAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.05, C:0.23, G:0.30, T:0.43
Consensus pattern (21 bp):
TGGCCTCTGTTCAGCCTGTGT
Found at i:58624049 original size:23 final size:23
Alignment explanation
Indices: 58624023--58624068 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
58624013 ACTGGTAATC
58624023 ATAGTTGAGCTCTTTTGAGCATA
1 ATAGTTGAGCTCTTTTGAGCATA
58624046 ATAGTTGAGCTCTTTTGAGCATA
1 ATAGTTGAGCTCTTTTGAGCATA
58624069 CGTTACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (23 bp):
ATAGTTGAGCTCTTTTGAGCATA
Found at i:58631096 original size:47 final size:47
Alignment explanation
Indices: 58631038--58631435 Score: 652
Period size: 47 Copynumber: 8.5 Consensus size: 47
58631028 ATTCAGCCAA
58631038 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
58631085 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
58631132 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
58631179 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
58631226 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
58631273 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
58631320 GAAAGTGTATATATGTGATAAGGCCTAGTGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
58631367 GAAAGTGTATATATGTGAGAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
58631414 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
58631436 TCCCGAAGGG
Statistics
Matches: 330, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 330 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:58631610 original size:37 final size:37
Alignment explanation
Indices: 58631554--58631632 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
58631544 CCGAGCTCTA
* *
58631554 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
58631591 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
58631628 AAGAC
1 AAGAC
58631633 GTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:58634676 original size:22 final size:22
Alignment explanation
Indices: 58634651--58634692 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
58634641 ACACGCTCAT
* *
58634651 GTGGTCTAAGTGACACGCCCGG
1 GTGGTCCAAGCGACACGCCCGG
58634673 GTGGTCCAAGCGACACGCCC
1 GTGGTCCAAGCGACACGCCC
58634693 ATGTGACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.33, G:0.33, T:0.14
Consensus pattern (22 bp):
GTGGTCCAAGCGACACGCCCGG
Found at i:58642221 original size:33 final size:33
Alignment explanation
Indices: 58642178--58642243 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
58642168 AATATGCAAA
** *
58642178 ACAGTCTTGGCTTTAGCCCTATACAGTATCAGT
1 ACAGTCTTGGCCATAGCCCTATACAGTAACAGT
* *
58642211 ACAGTTTTGGCCATAGCCCTATATAGTAACAGT
1 ACAGTCTTGGCCATAGCCCTATACAGTAACAGT
58642244 GTGGGCCTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (33 bp):
ACAGTCTTGGCCATAGCCCTATACAGTAACAGT
Found at i:58642406 original size:26 final size:26
Alignment explanation
Indices: 58642365--58642425 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
58642355 CTAGCCAGTA
* *
58642365 CAACAATATTGCAGCAAAGCTGCCAG
1 CAACAGTAATGCAGCAAAGCTGCCAG
* * *
58642391 TAATAGTAATGCAGCATAGCTGCCAG
1 CAACAGTAATGCAGCAAAGCTGCCAG
58642417 CAACAGTAA
1 CAACAGTAA
58642426 ATGTGGCAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (26 bp):
CAACAGTAATGCAGCAAAGCTGCCAG
Found at i:58642713 original size:27 final size:27
Alignment explanation
Indices: 58642697--58642919 Score: 76
Period size: 27 Copynumber: 8.3 Consensus size: 27
58642687 TATCCTACAT
58642697 GGGTATTTCGATAATTTTACACTACGA
1 GGGTATTTCGATAATTTTACACTACGA
* *
58642724 GGGTATTTTGGTAATTTTACGA--ACTGA
1 GGGTATTTCGATAATTTTAC-ACTAC-GA
* * *
58642751 TGGTATCTT-GGTAATTTTACAAATTA-G-
1 GGGTAT-TTCGATAATTTTAC--ACTACGA
** *
58642778 GGGTATTTTAATAATTTTACAAATTA-G-
1 GGGTATTTCGATAATTTTAC--ACTACGA
*
58642805 GGGTATTTC-AGTAATTTTACA-AATCGA
1 GGGTATTTCGA-TAATTTTACACTA-CGA
** *
58642832 GGGTATTTTTATAATTTTACAAACT-TG-
1 GGGTATTTCGATAATTTTAC--ACTACGA
* * *
58642859 GGGTATTACGGTAATTTTACA-AATCGA
1 GGGTATTTCGATAATTTTACACTA-CGA
* * *
58642886 GGGTATTTTGGTAATTTTACA-AATCGA
1 GGGTATTTCGATAATTTTACACTA-CGA
58642913 GGGTATT
1 GGGTATT
58642920 AAGAACCCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 36
0.74 0.09 0.17
Matches are distributed among these distances:
24 1 0.01
25 2 0.01
26 7 0.04
27 139 0.88
28 7 0.04
29 1 0.01
30 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACACTACGA
Found at i:58642919 original size:81 final size:81
Alignment explanation
Indices: 58642697--58642919 Score: 265
Period size: 81 Copynumber: 2.8 Consensus size: 81
58642687 TATCCTACAT
* * * *
58642697 GGGTATTTCGATAATTTTAC-ACTACGAGGGTATTTTGGTAATTTTACGAA-CTGATGGTATCTT
1 GGGTATTTCGATAATTTTACAAAT-CGAGGGTATTTTGGTAATTTTACAAATC-GAGGGTATTTT
*
58642760 GGTAATTTTACAAATTAG
64 GATAATTTTACAAATTAG
** * ** *
58642778 GGGTATTTTAATAATTTTACAAAT-TAGGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTT
1 GGGTATTTCGATAATTTTACAAATCGA-GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTG
58642842 ATAATTTTACAAACTT-G
65 ATAATTTTACAAA-TTAG
* *
58642859 GGGTATTACGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATT
1 GGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATT
58642920 AAGAACCCAA
Statistics
Matches: 119, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
80 1 0.01
81 112 0.94
82 6 0.05
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
GGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGA
TAATTTTACAAATTAG
Found at i:58642920 original size:54 final size:54
Alignment explanation
Indices: 58642697--58642920 Score: 217
Period size: 54 Copynumber: 4.1 Consensus size: 54
58642687 TATCCTACAT
* * * * *
58642697 GGGTATTTCGATAATTTTAC-ACTACGAGGGTATTTTGGTAATTTTACGAA-CTGA
1 GGGTATTACGGTAATTTTACAAAT-CGAGGGTATTTTGATAATTTTACAAATC-GA
* * * * *
58642751 TGGTATCT-TGGTAATTTTACAAAT-TAGGGGTATTTTAATAATTTTACAAAT-TA
1 GGGTAT-TACGGTAATTTTACAAATCGA-GGGTATTTTGATAATTTTACAAATCGA
* * * *
58642804 GGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTTATAATTTTACAAACTTG-
1 -GGGTATTACGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAA-TCGA
*
58642859 GGGTATTACGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGA
1 GGGTATTACGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAATCGA
58642913 GGGTATTA
1 GGGTATTA
58642921 AGAACCCAAC
Statistics
Matches: 140, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
53 5 0.04
54 130 0.93
55 5 0.04
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTACGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAATCGA
Found at i:58654434 original size:43 final size:43
Alignment explanation
Indices: 58654279--58654435 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
58654269 TGTGTTTTCG
* * * **
58654279 TGTAAGACCACGTCTGGGATGTTGGCATCGACT-TATGATTTATG
1 TGTAAGACCACGTCTGGGACGTTGGCATC-AATATTTGA-TTACA
* * * * * *
58654323 TGTAAGACCATGTCTGGGACATCGGGATC-GTATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCAATATTTGATTACA
*
58654365 TGTAAGACC-CTGTCTGGGATAG-TGGCATCAATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATCAATATTTGATTACA
58654408 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
58654436 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
42 26 0.29
43 38 0.43
44 25 0.28
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCAATATTTGATTACA
Found at i:58667966 original size:20 final size:20
Alignment explanation
Indices: 58667941--58667979 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58667931 TGTATTTGTA
* *
58667941 AAATTTTAGAATTTTTCATC
1 AAATTTTACAACTTTTCATC
58667961 AAATTTTACAACTTTTCAT
1 AAATTTTACAACTTTTCAT
58667980 TTTAGTCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (20 bp):
AAATTTTACAACTTTTCATC
Found at i:58674500 original size:59 final size:59
Alignment explanation
Indices: 58674428--58674547 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
58674418 GTCGCCGGAG
58674428 TCGGACACGAGGGGTTCACAGACTAAATTCGCTTACTATCGCAGTCCATTTTAAAATTT
1 TCGGACACGAGGGGTTCACAGACTAAATTCGCTTACTATCGCAGTCCATTTTAAAATTT
58674487 TCGGACACGAGGGGTTCACAGACTAAATTCGCTTACTATCGCAGTCCATTTTAAAATTT
1 TCGGACACGAGGGGTTCACAGACTAAATTCGCTTACTATCGCAGTCCATTTTAAAATTT
58674546 TC
1 TC
58674548 CAGGCAGTTG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (59 bp):
TCGGACACGAGGGGTTCACAGACTAAATTCGCTTACTATCGCAGTCCATTTTAAAATTT
Found at i:58675865 original size:37 final size:37
Alignment explanation
Indices: 58675815--58675893 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
58675805 TTATTACGAA
* *
58675815 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
58675852 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
58675889 GTCTT
1 GTCTT
58675894 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:58676090 original size:47 final size:47
Alignment explanation
Indices: 58676012--58676518 Score: 883
Period size: 47 Copynumber: 10.7 Consensus size: 47
58676002 CCCTTCGGGA
* * * * * *
58676012 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58676059 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58676106 CTTA-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58676152 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58676199 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58676246 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58676295 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58676344 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58676391 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58676438 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58676485 CTTATCACATATATGCACTTTCACA-TCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
58676519 AGAATCCATC
Statistics
Matches: 446, Mismatches: 11, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
46 55 0.12
47 295 0.66
49 96 0.22
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58676347 original size:192 final size:188
Alignment explanation
Indices: 58676012--58676518 Score: 883
Period size: 192 Copynumber: 2.7 Consensus size: 188
58676002 CCCTTCGGGA
* * * * * * * *
58676012 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
58676077 TTTCACATTCATCACATCGGCCATTAGGCCTTA-CACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
58676141 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58676199 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
58676264 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
58676329 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
127 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58676391 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
58676456 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGCACTTTCACA-TCATCACAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
58676519 AGAATCCATC
Statistics
Matches: 306, Mismatches: 9, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
187 56 0.18
188 16 0.05
189 43 0.14
190 50 0.16
192 141 0.46
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58676577 original size:18 final size:18
Alignment explanation
Indices: 58676556--58676592 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
58676546 CACATCATAT
58676556 CATATAC-TTCATCATACA
1 CATATACTTTCAT-ATACA
58676574 CATATACTTTCATATACA
1 CATATACTTTCATATACA
58676592 C
1 C
58676593 TGTCTTGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (18 bp):
CATATACTTTCATATACA
Found at i:58680190 original size:40 final size:39
Alignment explanation
Indices: 58680146--58680388 Score: 329
Period size: 40 Copynumber: 6.3 Consensus size: 39
58680136 TCTTCGAGGT
*
58680146 TTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGG-AC
*
58680186 TTAGCCCGGATACATCACTAGCACGAATGCTC-TCGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAC
*
58680224 TTAG-CCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTC-GGAC
58680263 TTAGCCCGGATATATCACTAGCACGAATGCTC-TCGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAC
58680301 TTAGCCCGG--ATATCACTAGCACGAATGCTCCTTCGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCT-CTTCGGAC
* * *
58680339 TTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGAC
1 TTAGCCCGGATAT-ATCAC-TAGCACGAATGCTCTTC-GGAC
58680379 TTAGCCCGGA
1 TTAGCCCGGA
58680389 CATCATTCAA
Statistics
Matches: 186, Mismatches: 7, Indels: 20
0.87 0.03 0.09
Matches are distributed among these distances:
36 20 0.11
37 27 0.15
38 35 0.19
39 18 0.10
40 72 0.39
41 8 0.04
42 6 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAC
Found at i:58680238 original size:77 final size:76
Alignment explanation
Indices: 58680146--58680350 Score: 324
Period size: 77 Copynumber: 2.7 Consensus size: 76
58680136 TCTTCGAGGT
58680146 TTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACG
1 TTAGC-CGGATATATCACTAGCACGAATGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACG
58680211 AATGCTCTCGGAC
64 AATGCTCTCGGAC
* *
58680224 TTAGCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGA
1 TTAGCCGGATATATCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGA
58680289 ATGCTCTCGGAC
65 ATGCTCTCGGAC
*
58680301 TTAGCCCGG--ATATCACTAGCACGAATGCTCCTTCGGACTTAGTCCGGATA
1 TTAG-CCGGATATATCACTAGCACGAATGCT-CTTCGGACTTAGCCCGGATA
58680351 TGGTCACTTA
Statistics
Matches: 120, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
76 35 0.29
77 74 0.62
78 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (76 bp):
TTAGCCGGATATATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAA
TGCTCTCGGAC
Found at i:58680358 original size:77 final size:76
Alignment explanation
Indices: 58680157--58680393 Score: 322
Period size: 77 Copynumber: 3.1 Consensus size: 76
58680147 TAGCACGGAT
*
58680157 ATATCACTAGCACGAATGCT-CTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTCG
1 ATATCACTAGCACGAATGCTCCTTCGG-ACTTAGCCCGGATATATCACTAGCACGAATGCTCTCG
58680221 GACTTAG-CCGG
65 GACTTAGCCCGG
58680232 ATATATCACTAGCACGAATGCTCC-TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCT
1 --ATATCACTAGCACGAATGCTCCTTC-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCT
58680296 CGGACTTAGCCCGG
63 CGGACTTAGCCCGG
* * *
58680310 ATATCACTAGCACGAATGCTCCTTCGGACTTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTT
1 ATATCACTAGCACGAATGCTCCTTCGGACTTAGCCCGGATAT-ATCAC-TAGCACGAATGCTC-T
58680373 CGGGACTTAGCCCGG
63 C-GGACTTAGCCCGG
*
58680388 ACATCA
1 ATATCA
58680394 TTCAAATAAC
Statistics
Matches: 147, Mismatches: 5, Indels: 15
0.88 0.03 0.09
Matches are distributed among these distances:
76 39 0.27
77 77 0.52
78 31 0.21
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (76 bp):
ATATCACTAGCACGAATGCTCCTTCGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTCGG
ACTTAGCCCGG
Found at i:58680733 original size:29 final size:29
Alignment explanation
Indices: 58680694--58680772 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
58680684 CTTAATAATC
*
58680694 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
58680724 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
58680753 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
58680773 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:58682731 original size:37 final size:37
Alignment explanation
Indices: 58682681--58682759 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
58682671 TTATTACGAA
* *
58682681 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
58682718 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
58682755 GTCTT
1 GTCTT
58682760 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:58682956 original size:47 final size:47
Alignment explanation
Indices: 58682878--58683382 Score: 861
Period size: 47 Copynumber: 10.7 Consensus size: 47
58682868 CCCTTCGGGA
* * * * * *
58682878 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58682925 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58682972 CTTA-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58683018 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58683065 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58683112 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58683161 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58683208 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58683257 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58683304 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58683351 CTTATCACATATATGCA-TGTTCACATCCATCA
1 CTTATCACATATATACACT-TTCACATTCATCA
58683383 TAGAATCCTA
Statistics
Matches: 440, Mismatches: 12, Indels: 12
0.95 0.03 0.03
Matches are distributed among these distances:
46 47 0.11
47 299 0.68
49 94 0.21
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58683153 original size:96 final size:94
Alignment explanation
Indices: 58682878--58683382 Score: 861
Period size: 96 Copynumber: 5.3 Consensus size: 94
58682868 CCCTTCGGGA
* * * * * * * *
58682878 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
58682943 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
58682972 CTTA-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
58683036 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
58683065 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
58683130 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
58683161 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
58683226 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
58683257 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
58683322 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
58683351 CTTATCACATATATGCA-TGTTCACATCCATCA
1 CTTATCACATATATACACT-TTCACATTCATCA
58683383 TAGAATCCTA
Statistics
Matches: 397, Mismatches: 10, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
93 86 0.22
94 121 0.30
96 190 0.48
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:58683183 original size:143 final size:141
Alignment explanation
Indices: 58682878--58683382 Score: 861
Period size: 143 Copynumber: 3.6 Consensus size: 141
58682868 CCCTTCGGGA
* * * * * * * *
58682878 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
58682943 TTTCACATTCATCACATCGGCCATTAGGCCTTA-CACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
58683007 GGCCATTAGGC
131 GGCCATTAGGC
58683018 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
58683083 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
58683148 TCGGCCATTAGGC
129 TCGGCCATTAGGC
58683161 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
58683226 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
58683291 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
58683304 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGCA-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
58683368 TGTTCACATCCATCA
66 T-TTCACATTCATCA
58683383 TAGAATCCTA
Statistics
Matches: 349, Mismatches: 10, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
140 91 0.26
141 23 0.07
143 188 0.54
145 47 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:58693952 original size:24 final size:24
Alignment explanation
Indices: 58693920--58694003 Score: 150
Period size: 24 Copynumber: 3.5 Consensus size: 24
58693910 CTATCAGGAG
58693920 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
58693944 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
* *
58693968 AGGATTTAGGAGCTGATAAGGGAG
1 AGGATTTAGGAGTTGATAAGGGAT
58693992 AGGATTTAGGAG
1 AGGATTTAGGAG
58694004 CTAATTAGGG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.33, C:0.01, G:0.39, T:0.26
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:58694004 original size:24 final size:24
Alignment explanation
Indices: 58693916--58694016 Score: 148
Period size: 24 Copynumber: 4.2 Consensus size: 24
58693906 AAGTCTATCA
*
58693916 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
58693940 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
58693964 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
58693988 GGAGAGGATTTAGGAGCTAATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
58694012 GGAGA
1 GGAGA
58694017 ACGGTGTGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.34, C:0.02, G:0.40, T:0.25
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:58695266 original size:27 final size:27
Alignment explanation
Indices: 58695188--58695267 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
58695178 AGGAAGCGTC
* **
58695188 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* *
58695215 CTGGTGGCACTACCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGTT
58695242 CTGGTGGCTCTGCCACAATTATCTGT
1 CTGGTGGCTCTGCCACAATTATCTGT
58695268 ATCGAGTGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.05
27 40 0.91
28 2 0.05
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:58697195 original size:45 final size:46
Alignment explanation
Indices: 58697126--58697611 Score: 596
Period size: 46 Copynumber: 10.6 Consensus size: 46
58697116 GCCTTCGGGA
* ** *
58697126 CTTATCACATTTATACACACCACATCCATCACATTGGCCA-TCGGC
1 CTTATCACATATATACACTTCACATTCATCACATTGGCCATTCGGC
58697171 CTTATCACATATATACACTTCACATTCATCACATT-GCCATTCGGC
1 CTTATCACATATATACACTTCACATTCATCACATTGGCCATTCGGC
* * **
58697216 CTTATCTCATATATGCTGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTCACATTCATCACATTGGCCATTCGGC
* * *
58697262 CTTATCACACATACACAGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTCACATTCATCACATTGGCCATTCGGC
* * *
58697308 CTTATCACACATACACATGTTCACATTCATCACATTGG-CATTCGGC
1 CTTATCACATATATACA-CTTCACATTCATCACATTGGCCATTCGGC
* * * *
58697354 CTTATC-CAGATATGCATGTTCACATTCATCACATTGGCCATT-TGC
1 CTTATCACATATATACA-CTTCACATTCATCACATTGGCCATTCGGC
* * **
58697399 CTTATCACACAT-CACTGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTCACATTCATCACATTGGCCATTCGGC
58697444 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACAC-TTCACATTCATCACATTGGCCATTCGGC
* *
58697493 CTTATCACATATATACACTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTCACATTCATCACATTGGCCATTCGGC
* *
58697539 CTTATCACATATATAACACTTTCACA-TCATCACATCGGCCATT-AGC
1 CTTATCACATATAT-ACAC-TTCACATTCATCACATTGGCCATTCGGC
58697585 CTTATCAC--ATATACACTTGCACATTCA
1 CTTATCACATATATACACTT-CACATTCA
58697612 CATCGGCTAT
Statistics
Matches: 398, Mismatches: 29, Indels: 29
0.87 0.06 0.06
Matches are distributed among these distances:
42 2 0.01
43 8 0.02
44 36 0.09
45 114 0.29
46 140 0.35
47 54 0.14
48 8 0.02
49 36 0.09
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (46 bp):
CTTATCACATATATACACTTCACATTCATCACATTGGCCATTCGGC
Found at i:58697314 original size:22 final size:22
Alignment explanation
Indices: 58697243--58697316 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
58697233 GTTCACATTC
58697243 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * *
58697265 ATCACACAT-ACACAGTTC-ACATT
1 ATCACA-TTGGC-CA-TTCGGCCTT
58697288 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
58697311 ATCACA
1 ATCACA
58697317 CATACACATG
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
22 16 0.42
23 12 0.32
24 10 0.26
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.28
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:58697571 original size:231 final size:228
Alignment explanation
Indices: 58697146--58697590 Score: 621
Period size: 231 Copynumber: 1.9 Consensus size: 228
58697136 TTATACACAC
* *
58697146 CACATCCATCACATTGGCCATCGGCCTTATCACATATATACACTTCACATTCATCACATTGCCAT
1 CACATCCATCACATTGGCCATCGGCCTTATCACACATACACACTTCACATTCATCACATTGCCAT
* *
58697211 TCGGCCTTATCTCATATATGCTGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
66 TCGGCCTTATCACATATATACTGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
* * * *
58697276 ACAGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCAC
131 ACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATAAACATGTTCACATTCATCAC
* *
58697341 ATTGG-CATTCGGCCTTATCCAGATATGCATGTT
196 ATCGGCCATT-AGCCTTATCCAGATATGCATGTT
* ** **
58697374 CACATTCATCACATTGGCCATTTGCCTTATCACACAT-CACTGTTCACATTCATCACATTGGCCA
1 CACATCCATCACATTGGCCATCGGCCTTATCACACATACACACTTCACATTCATCACATT-GCCA
58697438 TTCGGCCTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACA
65 TTCGGCCTTATCAC--ATATAT--ACTGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
* * *
58697502 TATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAACACT-TTCACA-
126 CATACACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATA-AACA-TGTTCACAT
58697565 TCATCACATCGGCCATTAGCCTTATC
189 TCATCACATCGGCCATTAGCCTTATC
58697591 ACATATACAC
Statistics
Matches: 191, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
227 19 0.10
228 50 0.26
230 6 0.03
231 100 0.52
232 15 0.08
233 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (228 bp):
CACATCCATCACATTGGCCATCGGCCTTATCACACATACACACTTCACATTCATCACATTGCCAT
TCGGCCTTATCACATATATACTGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
ACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATAAACATGTTCACATTCATCAC
ATCGGCCATTAGCCTTATCCAGATATGCATGTT
Found at i:58697638 original size:41 final size:42
Alignment explanation
Indices: 58697454--58697638 Score: 162
Period size: 46 Copynumber: 4.2 Consensus size: 42
58697444 CTTATCACAT
* **
58697454 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
1 ATATATACAC-TTCACA-T-ATCACATCGGCCATTAAGCC-T-TCAC
*
58697501 ATATATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACTTCACA-T-ATCACATCGGCCATTAAGCC-T-TCAC
58697547 ATATATAACACTTTCACATCATCACATCGGCCATT-AGCCTT-ATC
1 ATATAT-ACAC-TTCACAT-ATCACATCGGCCATTAAGCCTTCA-C
* *
58697591 ACATATACACTTGCACAT-TCACATCGGCTATTAAG-CTTCAC
1 ATATATACACTT-CACATATCACATCGGCCATTAAGCCTTCAC
58697632 ATATATA
1 ATATATA
58697639 TTTCACATTT
Statistics
Matches: 126, Mismatches: 6, Indels: 18
0.84 0.04 0.12
Matches are distributed among these distances:
41 23 0.18
42 5 0.04
43 10 0.08
44 7 0.06
45 1 0.01
46 43 0.34
47 31 0.25
48 6 0.05
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (42 bp):
ATATATACACTTCACATATCACATCGGCCATTAAGCCTTCAC
Found at i:58699095 original size:85 final size:85
Alignment explanation
Indices: 58698974--58699144 Score: 324
Period size: 85 Copynumber: 2.0 Consensus size: 85
58698964 TGCCCATTCC
*
58698974 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTATTAGCCATA
58699039 ACATCTTGTCCACCCATGCT
66 ACATCTTGTCCACCCATGCT
*
58699059 CTTTATTTTATTAATTCTTACATAATGCACTACCCCAACATGTTTATGACATGTTATTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTATTAGCCATA
58699124 ACATCTTGTCCACCCATGCT
66 ACATCTTGTCCACCCATGCT
58699144 C
1 C
58699145 ATGGCCGGCC
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (85 bp):
CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTATTAGCCATA
ACATCTTGTCCACCCATGCT
Found at i:58699834 original size:29 final size:27
Alignment explanation
Indices: 58699796--58699856 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
58699786 TGCATGAAAA
*
58699796 CCCTAAGAATAGTTAAATTACTTGA-ATAC
1 CCCTAAGAAT-G-GAAATTAC-TGATATAC
*
58699825 CCCTATGAATGGAAATTACTGATATAC
1 CCCTAAGAATGGAAATTACTGATATAC
58699852 CCCTA
1 CCCTA
58699857 GGTGCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 3 0.10
27 16 0.55
28 1 0.03
29 9 0.31
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
CCCTAAGAATGGAAATTACTGATATAC
Found at i:58700065 original size:28 final size:28
Alignment explanation
Indices: 58699988--58700067 Score: 96
Period size: 27 Copynumber: 2.9 Consensus size: 28
58699978 AGGAAGCATC
*
58699988 CTGGTGGCT-ATGCTACAATTATCTGAT
1 CTGGTGGCTCATGCCACAATTATCTGAT
*
58700015 CTGGTGGCAC-TGCCAC-ATATATCT-ATT
1 CTGGTGGCTCATGCCACAAT-TATCTGA-T
58700042 CTGGTGGCTCATGCCACAATTATCTG
1 CTGGTGGCTCATGCCACAATTATCTG
58700068 TATCGAGTGG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
26 3 0.07
27 28 0.64
28 11 0.25
29 2 0.05
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (28 bp):
CTGGTGGCTCATGCCACAATTATCTGAT
Found at i:58700781 original size:54 final size:53
Alignment explanation
Indices: 58700697--58700807 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 53
58700687 AGGAAGCGTC
* *
58700697 CTGGTGGCTATGCTACAATTATCTGATCTGGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACAT-TATCTGTT
* * *
58700751 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACACTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACATTATCTGTT
58700804 CTGG
1 CTGG
58700808 CAGTCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
53 12 0.23
54 40 0.77
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACATTATCTGTT
Found at i:58700804 original size:26 final size:26
Alignment explanation
Indices: 58700697--58700807 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
58700687 AGGAAGCGTC
* *
58700697 CTGGTGGCTA-TGCTACAATTATCTGAT
1 CTGGTGGC-ACTGCCAC-ATTATCTGTT
58700724 CTGGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAT-TATCTGTT
*
58700751 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCACTGCCAC-ATTATCTGTT
* *
58700778 CTGGTGACACTGTCACATTATCTGTT
1 CTGGTGGCACTGCCACATTATCTGTT
58700804 CTGG
1 CTGG
58700808 CAGTCATGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 17 0.23
27 56 0.75
28 2 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCACTGCCACATTATCTGTT
Found at i:58707125 original size:24 final size:24
Alignment explanation
Indices: 58707026--58707126 Score: 148
Period size: 24 Copynumber: 4.2 Consensus size: 24
58707016 AAGTCTGTGA
*
58707026 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* * *
58707050 GGATAGGATTTACGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
58707074 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
58707098 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
58707122 GGAGA
1 GGAGA
58707127 ATGGTGTGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.33, C:0.03, G:0.40, T:0.25
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:58708389 original size:54 final size:53
Alignment explanation
Indices: 58708306--58708411 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 53
58708296 GGAAGCGTCC
*
58708306 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCTGTTT
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACAT-TATCTGTTT
* * *
58708360 TGGTGGCTCTGCCACAATTATCTGTTCTGGTGACACTGTCACATTATCTGTT
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACATTATCTGTT
58708412 CTGGCAGCCA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
53 8 0.17
54 40 0.83
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (53 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCCACATTATCTGTTT
Found at i:58708412 original size:26 final size:26
Alignment explanation
Indices: 58708305--58708415 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
58708295 AGGAAGCGTC
*
58708305 CTGGTGGCTA-TGCCACAATTATCTGAT
1 CTGGTGGC-ACTGCCAC-ATTATCTGTT
58708332 CTGGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAT-TATCTGTT
* *
58708359 TTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCACTGCCAC-ATTATCTGTT
* *
58708386 CTGGTGACACTGTCACATTATCTGTT
1 CTGGTGGCACTGCCACATTATCTGTT
58708412 CTGG
1 CTGG
58708416 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.23
27 55 0.74
28 2 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCACTGCCACATTATCTGTT
Found at i:58717795 original size:10 final size:10
Alignment explanation
Indices: 58717780--58717818 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 10
58717770 TATCGAGGGA
58717780 GAGAAGAGAG
1 GAGAAGAGAG
58717790 GAGAAGAAGAG
1 GAGAAG-AGAG
58717801 AGAAGAAGAGAG
1 -G-AGAAGAGAG
58717813 GAGAAG
1 GAGAAG
58717819 GGAAAAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 11 0.42
11 5 0.19
12 5 0.19
13 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (10 bp):
GAGAAGAGAG
Found at i:58717797 original size:13 final size:13
Alignment explanation
Indices: 58717777--58717818 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
58717767 TGGTATCGAG
58717777 GGAG-AGAAGAGA
1 GGAGAAGAAGAGA
58717789 GGAGAAG-A-AGA
1 GGAGAAGAAGAGA
58717800 -GAGAAGAAGAGA
1 GGAGAAGAAGAGA
58717812 GGAGAAG
1 GGAGAAG
58717819 GGAAAAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 6 0.23
11 4 0.15
12 8 0.31
13 8 0.31
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (13 bp):
GGAGAAGAAGAGA
Found at i:58722653 original size:48 final size:48
Alignment explanation
Indices: 58722600--58722803 Score: 199
Period size: 48 Copynumber: 4.4 Consensus size: 48
58722590 TATCTCGAAT
*
58722600 ATGGTCTTACATAGGATCATATATCGATGCCAATGCCATGTCCTAGAC
1 ATGGTCTTACATAGGATCACATATCGATGCCAATGCCATGTCCTAGAC
* * * *
58722648 ATGGTCTTACGTTGGATCGTC-GATCGATGCCAATGCCATGTCCTAGAC
1 ATGGTCTTACATAGGATC-ACATATCGATGCCAATGCCATGTCCTAGAC
* * *
58722696 ATGGTCTTACATAGGATCACATATAGATGCCGAT---A-G-CCCAG-C
1 ATGGTCTTACATAGGATCACATATCGATGCCAATGCCATGTCCTAGAC
* * * *
58722738 TATGGTCTTACA-CGAAATTACATATCGATGCCAATGCCATGCCCTAGAC
1 -ATGGTCTTACATAG-GATCACATATCGATGCCAATGCCATGTCCTAGAC
* *
58722787 ATGGTCTAACATGGGAT
1 ATGGTCTTACATAGGAT
58722804 TGTATATAAC
Statistics
Matches: 124, Mismatches: 21, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 31 0.25
44 1 0.01
45 1 0.01
46 1 0.01
47 2 0.02
48 84 0.68
49 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (48 bp):
ATGGTCTTACATAGGATCACATATCGATGCCAATGCCATGTCCTAGAC
Found at i:58723005 original size:28 final size:28
Alignment explanation
Indices: 58722973--58723028 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
58722963 TAATATTGTA
*
58722973 ACGTTGCATTATTTATACACAAACTTAC
1 ACGTTGCATTATTTACACACAAACTTAC
58723001 ACGTTGCATTATTTACACACAAACTTAC
1 ACGTTGCATTATTTACACACAAACTTAC
58723029 CTTGGTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (28 bp):
ACGTTGCATTATTTACACACAAACTTAC
Found at i:58724433 original size:29 final size:29
Alignment explanation
Indices: 58724374--58724436 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
58724364 CTGTTAAGAT
* **
58724374 CATCAAATATGAAAAGGGATGGTTTTGAC
1 CATCGAATATGAAAAGGGATGGTTTCAAC
*
58724403 CATCGAATATGAAAATGGATGGTTTCAAC
1 CATCGAATATGAAAAGGGATGGTTTCAAC
58724432 CATCG
1 CATCG
58724437 TTTAGCACAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (29 bp):
CATCGAATATGAAAAGGGATGGTTTCAAC
Found at i:58724622 original size:16 final size:16
Alignment explanation
Indices: 58724603--58724650 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 16
58724593 ATGATTATGA
58724603 AATGTATGATTTAAGT
1 AATGTATGATTTAAGT
58724619 AATGTTATATGATTTAAGT
1 AATG---TATGATTTAAGT
58724638 AATGTATGATTTA
1 AATGTATGATTTA
58724651 TGTACCATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 13 0.45
19 16 0.55
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.46
Consensus pattern (16 bp):
AATGTATGATTTAAGT
Found at i:58727597 original size:43 final size:42
Alignment explanation
Indices: 58727532--58727635 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 42
58727522 TCCGAGCTTG
** * *
58727532 TTGAGTGGTCCGAGTTTGTGATATATGTGAGAATCTGAACTTA
1 TTGAGTGGTCCGAGTTCATGATATATGT-AGAATCCGAACTCA
* * *
58727575 TTGAGTGGTCCAAGTTCATGATATATGTAGCATCCGAGCTCA
1 TTGAGTGGTCCGAGTTCATGATATATGTAGAATCCGAACTCA
*
58727617 TTGAGTGGTTCGAGTTCAT
1 TTGAGTGGTCCGAGTTCAT
58727636 TATGGATGTG
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
42 27 0.52
43 25 0.48
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (42 bp):
TTGAGTGGTCCGAGTTCATGATATATGTAGAATCCGAACTCA
Found at i:58727664 original size:43 final size:42
Alignment explanation
Indices: 58727574--58727684 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 42
58727564 ATCTGAACTT
* * * ** *
58727574 ATTGAGTGGTCCAAGTTCATGATATATGTAGCATCCGAGCTC
1 ATTGAGTGGTTCGAGTTCATAATGGATGTAGCATACGAGCTC
* *
58727616 ATTGAGTGGTTCGAGTTCATTATGGATGTGAGCATACGAGCTT
1 ATTGAGTGGTTCGAGTTCATAATGGATGT-AGCATACGAGCTC
*
58727659 TTTGAGTGGTTCGAGTTCATAATGGA
1 ATTGAGTGGTTCGAGTTCATAATGGA
58727685 CGCGATACAT
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 24 0.41
43 35 0.59
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (42 bp):
ATTGAGTGGTTCGAGTTCATAATGGATGTAGCATACGAGCTC
Found at i:58733942 original size:42 final size:42
Alignment explanation
Indices: 58733832--58733944 Score: 160
Period size: 40 Copynumber: 2.7 Consensus size: 42
58733822 TTGATGACAA
* * *
58733832 TTCGACTATGTATGGCACTTAGTGTGC--GATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGAGATTCAAAATAGC
*
58733872 TTCAGCTATGTATGGCACTTAGTGTGCGAGATT-AAAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGAGATTCAAAATAGC
58733913 TTCGGCTATGTATTGGCACTTAGTGTGCGAGA
1 TTCGGCTATGTA-TGGCACTTAGTGTGCGAGA
58733945 ATTTGAGTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
40 25 0.38
41 17 0.26
42 23 0.35
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
TTCGGCTATGTATGGCACTTAGTGTGCGAGATTCAAAATAGC
Found at i:58737257 original size:31 final size:31
Alignment explanation
Indices: 58737219--58737336 Score: 182
Period size: 31 Copynumber: 3.8 Consensus size: 31
58737209 GAAGTGCGGT
*
58737219 AGTGATATGATTTATGAAAATGCTTTAGCCC
1 AGTGATATGATTTATGAAAAGGCTTTAGCCC
*
58737250 AGTGATATGATTTATGAAAAGGCTTCAGCCC
1 AGTGATATGATTTATGAAAAGGCTTTAGCCC
* *
58737281 AGTGATATGATTTATGAAAAGGCTTTGGCCT
1 AGTGATATGATTTATGAAAAGGCTTTAGCCC
* *
58737312 AGTGATATGGTTTATGGAAAGGCTT
1 AGTGATATGATTTATGAAAAGGCTT
58737337 CGGCCCAATA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 80 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.34
Consensus pattern (31 bp):
AGTGATATGATTTATGAAAAGGCTTTAGCCC
Found at i:58748424 original size:24 final size:24
Alignment explanation
Indices: 58748396--58748456 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
58748386 AATCGTATTT
* * *
58748396 GCACACATAGTGCTA-ATTACACTC
1 GCACACATAGTGCCATAGTAAAC-C
58748420 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
58748444 GCACACATAGTGC
1 GCACACATAGTGC
58748457 ATTGGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:58749688 original size:14 final size:16
Alignment explanation
Indices: 58749654--58749688 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
58749644 ATTCATCTAT
58749654 TTTTATTATTAAATCA
1 TTTTATTATTAAATCA
58749670 TTTTATT-TTAAAT-A
1 TTTTATTATTAAATCA
58749684 TTTTA
1 TTTTA
58749689 ATCATTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 6 0.32
16 7 0.37
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTATTATTAAATCA
Found at i:58752246 original size:29 final size:29
Alignment explanation
Indices: 58752203--58752260 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
58752193 AATTCTCGAT
58752203 GTAGATACTAAATGTCCTAAAGAGCTAAC
1 GTAGATACTAAATGTCCTAAAGAGCTAAC
* *
58752232 GTAGATACTACATGTCCTAAGGAGCTAAC
1 GTAGATACTAAATGTCCTAAAGAGCTAAC
58752261 TTCTCTCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (29 bp):
GTAGATACTAAATGTCCTAAAGAGCTAAC
Found at i:58756495 original size:24 final size:24
Alignment explanation
Indices: 58756467--58756527 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
58756457 AATCGTATTT
* * *
58756467 GCACACATAGTGCTA-ATTACACTC
1 GCACACATAGTGCCATAGTAAAC-C
58756491 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
58756515 GCACACATAGTGC
1 GCACACATAGTGC
58756528 ATTGGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:58760655 original size:24 final size:22
Alignment explanation
Indices: 58760597--58760642 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
58760587 AGCTAGCTTT
58760597 ATAACACTGTAAGACAGAGAAC
1 ATAACACTGTAAGACAGAGAAC
58760619 ATAACACTGTAAGACAGAGAAC
1 ATAACACTGTAAGACAGAGAAC
58760641 AT
1 AT
58760643 TTCACACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.15
Consensus pattern (22 bp):
ATAACACTGTAAGACAGAGAAC
Found at i:58761117 original size:40 final size:40
Alignment explanation
Indices: 58761073--58761159 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 40
58761063 TCTCAATATT
*
58761073 GCACACTAAGTGCCACATATAGCCGAAGCTATTCCAATTC
1 GCACACTAAGTGCCACATATAGCCGAAGCTATTCCAAATC
* * ** *
58761113 GCACACTTAGTGCTATTTATAGCCGAAGCTATTTCAAATC
1 GCACACTAAGTGCCACATATAGCCGAAGCTATTCCAAATC
58761153 GCACACT
1 GCACACT
58761160 TATTGCCGCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (40 bp):
GCACACTAAGTGCCACATATAGCCGAAGCTATTCCAAATC
Found at i:58769150 original size:18 final size:21
Alignment explanation
Indices: 58769119--58769162 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 21
58769109 AACTCAATTC
58769119 ATTTATATATATACTTAAT-A
1 ATTTATATATATACTTAATAA
58769139 ATTTATA-A-ATACTTAATAA
1 ATTTATATATATACTTAATAA
58769158 ATTTA
1 ATTTA
58769163 CACTATCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.39
19 7 0.30
20 7 0.30
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTATATATATACTTAATAA
Found at i:58777625 original size:19 final size:20
Alignment explanation
Indices: 58777601--58777638 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58777591 GGTACCACCA
58777601 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
58777620 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
58777639 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:58777937 original size:47 final size:49
Alignment explanation
Indices: 58777863--58777992 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 49
58777853 AACCCACCCC
*
58777863 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCA
* * *
58777911 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
*
58777956 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
58777993 TCAACCATCC
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 2 0.03
46 29 0.41
47 29 0.41
48 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
Found at i:58778008 original size:46 final size:45
Alignment explanation
Indices: 58777865--58778008 Score: 136
Period size: 46 Copynumber: 3.1 Consensus size: 45
58777855 CCCACCCCTA
58777865 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * *
58777912 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
58777958 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
58778004 AGTGA
1 AGTGA
58778009 CATGTCACTT
Statistics
Matches: 79, Mismatches: 8, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.42
47 31 0.39
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:58785361 original size:93 final size:93
Alignment explanation
Indices: 58785251--58785421 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
58785241 GCCCCTAAGT
* *
58785251 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
58785316 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
58785344 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
58785409 CGAGTTCGGATGC
66 CGAGTTCGGATGC
58785422 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:58785418 original size:46 final size:46
Alignment explanation
Indices: 58785246--58785418 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
58785236 AACCCGCCCC
* * * *
58785246 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
58785292 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
58785340 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
58785385 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
58785419 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:58785875 original size:30 final size:30
Alignment explanation
Indices: 58785841--58785897 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
58785831 ATTTAATACG
58785841 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
58785871 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTAAAAAAATTACACTTTTGCCC
58785898 TAGGCTCGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:58790765 original size:43 final size:42
Alignment explanation
Indices: 58790718--58790866 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 42
58790708 TAGTGCCACA
* * *
58790718 TCTGGTACGTTGACATCGATATGTGATTACATGTAAGACCATG
1 TCTGGGACGTTGGCATTGATATGTGATT-CATGTAAGACCATG
* * * * *
58790761 TCTGGGACATCGGCATTG-TATTTGATTCGTGTAAGACCCTG
1 TCTGGGACGTTGGCATTGATATGTGATTCATGTAAGACCATG
* *
58790802 TTTGGGACAG-TGGCATTGATATGTGATTGCATGTAAGACCACG
1 TCTGGGAC-GTTGGCATTGATATGTGATT-CATGTAAGACCATG
* *
58790845 CCTGGGATGTTGGCATTG-TATG
1 TCTGGGACGTTGGCATTGATATG
58790867 ATATATATGA
Statistics
Matches: 84, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
41 26 0.31
42 21 0.25
43 37 0.44
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (42 bp):
TCTGGGACGTTGGCATTGATATGTGATTCATGTAAGACCATG
Found at i:58790796 original size:41 final size:41
Alignment explanation
Indices: 58790737--58790866 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 41
58790727 TTGACATCGA
*
58790737 TATGTGATTACATGTAAGACCATGTCTGGGACATCGGCATTG
1 TATGTGATTGCATGTAAGACCATGTCTGGGACAT-GGCATTG
* * * *
58790779 TATTTGATT-CGTGTAAGACCCTGTTTGGGACAGTGGCATTG
1 TATGTGATTGCATGTAAGACCATGTCTGGGACA-TGGCATTG
* * **
58790820 ATATGTGATTGCATGTAAGACCACGCCTGGGATGTTGGCATTG
1 -TATGTGATTGCATGTAAGACCATGTCTGGGA-CATGGCATTG
58790863 TATG
1 TATG
58790867 ATATATATGA
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
41 27 0.38
42 21 0.29
43 24 0.33
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (41 bp):
TATGTGATTGCATGTAAGACCATGTCTGGGACATGGCATTG
Found at i:58796810 original size:48 final size:48
Alignment explanation
Indices: 58796749--58797163 Score: 234
Period size: 48 Copynumber: 8.6 Consensus size: 48
58796739 GATATGTGCA
* *
58796749 CCAGTGTAAGACCATGTCTGGGACATGGCGTTAGATACGATATGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCAGATACGATATGAGAG
* * * * * * * * *
58796797 CCAATGTAAGACCATGTTTGGAACATAGCATCAAAAATGTTGTGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCAGATACGATATGAGAG
* * *
58796845 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTA--ATATGTA-CG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCAG-A-TACGATATG-AGAG
* * * * **
58796893 CTAGTGTAAGACCATGTATCGGACATGGCGTCAGCCACGATATGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCAGATACGATATGAGAG
* * * ** *
58796941 CCAGTGTAAGACCATGTTTGGAACATGGCATC-GAAAATATTGTGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCAGATACGA-TATGAGAG
* * * ** * * *
58796989 CTAGTGTAAGACCATGTATGGGATATGGCATTGGCAT-TGATATGTGCG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCAG-ATACGATATGAGAG
*** * * *
58797037 ATTGTGTAAGACCATGTCTAGGACATGACATC-GGTCAC-ATTATGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCAGAT-ACGA-TATGAGAG
* ** * ** * * *
58797085 CTAGTGTAAGGTCATGTCTTGGACATGGCATTGGCCT-CGACATGTGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCAG-ATACGATATGAGAG
* * *
58797133 CCAATGTAAGACCATGTTTGGAACATGGCAT
1 CCAGTGTAAGACCATGTCTGGGACATGGCAT
58797164 TAAAAATTCA
Statistics
Matches: 274, Mismatches: 78, Indels: 30
0.72 0.20 0.08
Matches are distributed among these distances:
46 2 0.01
47 6 0.02
48 257 0.94
49 6 0.02
50 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCAGATACGATATGAGAG
Found at i:58796939 original size:96 final size:98
Alignment explanation
Indices: 58796839--58797163 Score: 281
Period size: 96 Copynumber: 3.4 Consensus size: 98
58796829 AAAAATGTTG
* *
58796839 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTAATA-TGT-A-CGCTAGTGTA
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTA-AAATATTGTGAGAGCTAGTGTA
*
58796901 AGACCATGTATCGGACATGGCGTCAGCCA-CGATA
65 AGACCATGTATCGGACATGGCAT-AGCCATCGATA
* * *
58796935 TGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC-G-AAAATATTGTGAGAGCTAGTGTAA
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTAAAATATTGTGAGAGCTAGTGTAA
* * * * *
58796998 GACCATGTATGGGATATGGCATTGGCATTGATA
66 GACCATGTATCGGACATGGCATAGCCATCGATA
* * * * * * * * *
58797031 TGTGCGATTGTGTAAGACCATGTCTAGGACATGACATCGGT--CACATTATGAGAGCTAGTGTAA
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTAAAATATTGTGAGAGCTAGTGTAA
** * * * *
58797094 GGTCATGTCTTGGACATGGCATTGGCC-TCGACA
66 GACCATGTATCGGACATGGCA-TAGCCATCGATA
* * * * *
58797127 TGTGAGCCAATGTAAGACCATGTTTGGAACATGGCAT
1 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
58797164 TAAAAATTCA
Statistics
Matches: 181, Mismatches: 41, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
93 4 0.02
94 4 0.02
95 5 0.03
96 164 0.91
97 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (98 bp):
TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTAAAATATTGTGAGAGCTAGTGTAA
GACCATGTATCGGACATGGCATAGCCATCGATA
Found at i:58797000 original size:144 final size:144
Alignment explanation
Indices: 58796751--58797115 Score: 473
Period size: 144 Copynumber: 2.5 Consensus size: 144
58796741 TATGTGCACC
* * * *
58796751 AGTGTAAGACCATGTCTGGGACATGGCGTTAGATACGATATGAGAGCCAATGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTAGGACATGGCGTCAGACACGATATGAGAGCCAGTGTAAGACCATGTTT
* * * *
58796816 GGAACATAGCATCAAAAATGTTGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTA
66 GGAACATGGCATCAAAAATATTGTGAGAGCTAGTGTAAGACCATGTATGGGACATGGCATCGGCA
*
58796881 TTAATATGTACGCT
131 TTAATATGTACGAT
* * *
58796895 AGTGTAAGACCATGTATCGGACATGGCGTCAGCCACGATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTAGGACATGGCGTCAGACACGATATGAGAGCCAGTGTAAGACCATGTTT
* * *
58796960 GGAACATGGCATCGAAAATATTGTGAGAGCTAGTGTAAGACCATGTATGGGATATGGCATTGGCA
66 GGAACATGGCATCAAAAATATTGTGAGAGCTAGTGTAAGACCATGTATGGGACATGGCATCGGCA
* *
58797025 TTGATATGTGCGAT
131 TTAATATGTACGAT
* * * * * * **
58797039 TGTGTAAGACCATGTCTAGGACATGACATCGGTCAC-ATTATGAGAGCTAGTGTAAGGTCATGTC
1 AGTGTAAGACCATGTCTAGGACATGGCGTCAGACACGA-TATGAGAGCCAGTGTAAGACCATGT-
58797103 TTGG-ACATGGCAT
64 TTGGAACATGGCAT
58797116 TGGCCTCGAC
Statistics
Matches: 193, Mismatches: 26, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
143 1 0.01
144 188 0.97
145 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (144 bp):
AGTGTAAGACCATGTCTAGGACATGGCGTCAGACACGATATGAGAGCCAGTGTAAGACCATGTTT
GGAACATGGCATCAAAAATATTGTGAGAGCTAGTGTAAGACCATGTATGGGACATGGCATCGGCA
TTAATATGTACGAT
Found at i:58804525 original size:48 final size:48
Alignment explanation
Indices: 58804419--58804884 Score: 329
Period size: 48 Copynumber: 9.8 Consensus size: 48
58804409 TATGTACGCT
* * * *
58804419 AGTGTAAGACCATGTGTGGGACATGGCATCGGC-ACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGACAATGATATGAGAGCC
* * * * * *
58804466 AATGTAAGACCATGTTTAGAACATGG-AGTCGATAATGTTGTGAGAGCC
1 AGTGTAAGACCATGTCTGGAACATGGCA-TCGACAATGATATGAGAGCC
* * * * *
58804514 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGACAATGATATGAGAGCC
* * * * *
58804562 AGTGTAAAACCATGACTCGG-ACATGGCGTC-AGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCT-GGAACATGGCATCGA-CAATGATATGAGAGCC
* ** * * *
58804610 AGTGTAAGACCATGTTTGGAACATGGCATCGGTAATGTTGTGAGAACC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGACAATGATATGAGAGCC
* * * * * * *
58804658 AGTGTAAGACCATGTCTGGGACATAGCATCGGCATTGATATGTGTGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGACAATGATATGAGAGCC
*
58804706 AGTGTAAGACCATGTCTGG-ACATGGCATCGGCCACAT--TATGAGAGCC
1 AGTGTAAGACCATGTCTGGAACATGGCATC-GACA-ATGATATGAGAGCC
* ** * * * * *
58804753 AGTGTAAGACAATGTCTGGGGCATGGCATC-AGCATTGAGACGGGAGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGA-CAATGATATGAGAGCC
* * * * * * * *
58804801 AGCGTAAGACCATGTTTGGGACATGGTATCGGC-CTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGACAAT-GATATGAGAGCC
* * *
58804849 AGTTTAAGACCATGTTTGGAACATGGCATCGTCAAT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGACAAT
58804885 TCACCCTTTT
Statistics
Matches: 321, Mismatches: 82, Indels: 30
0.74 0.19 0.07
Matches are distributed among these distances:
46 2 0.01
47 65 0.20
48 249 0.78
49 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGAACATGGCATCGACAATGATATGAGAGCC
Found at i:58804665 original size:144 final size:142
Alignment explanation
Indices: 58804406--58804782 Score: 533
Period size: 144 Copynumber: 2.6 Consensus size: 142
58804396 GACATTTGGG
* * * *
58804406 TGATATGTACGCTAGTGTAAGACCATGTGTGGGACATGGCATCGGCACGATATGAGAGCCAATGT
1 TGATATGTGCGCTAGTGTAAGACCATGTCT-GGACATGGCATCGCCACGATATGAGAGCCAGTGT
* *
58804471 AAGACCATGTTTAGAACATGG-AGTCGATAATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGA
65 AAGACCATGTTTGGAACATGGCA-TCGATAATGTTGTGAGAACCAGTGTAAGACCATGTCTGGGA
*
58804535 CATGGCATCGACAT
129 CATAGCATCGACAT
* * *
58804549 TGATATGTGCGCTAGTGTAAAACCATGACTCGGACATGGCGTCAGCCACGATATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCT-GGACATGGCATC-GCCACGATATGAGAGCCAGTG
*
58804614 TAAGACCATGTTTGGAACATGGCATCGGTAATGTTGTGAGAACCAGTGTAAGACCATGTCTGGGA
64 TAAGACCATGTTTGGAACATGGCATCGATAATGTTGTGAGAACCAGTGTAAGACCATGTCTGGGA
*
58804679 CATAGCATCGGCAT
129 CATAGCATCGACAT
*
58804693 TGATATGTGTGCTAGTGTAAGACCATGTCTGGACATGGCATCGGCCAC-ATTATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGACATGGCATC-GCCACGA-TATGAGAGCCAGTG
* * **
58804757 TAAGACAATGTCTGGGGCATGGCATC
64 TAAGACCATGTTTGGAACATGGCATC
58804783 AGCATTGAGA
Statistics
Matches: 209, Mismatches: 22, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
142 1 0.00
143 89 0.43
144 118 0.56
145 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (142 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGACATGGCATCGCCACGATATGAGAGCCAGTGTA
AGACCATGTTTGGAACATGGCATCGATAATGTTGTGAGAACCAGTGTAAGACCATGTCTGGGACA
TAGCATCGACAT
Found at i:58804850 original size:239 final size:239
Alignment explanation
Indices: 58804419--58804879 Score: 577
Period size: 239 Copynumber: 1.9 Consensus size: 239
58804409 TATGTACGCT
* * *
58804419 AGTGTAAGACCATGTGTGGGACATGGCATCGGCACGATATGAGAGCCAATGTAAGACCATGTTTA
1 AGTGTAAGACCATGTCTGGGACATAGCATCGGCACGATATGAGAGCCAATGTAAGACCATGTCTA
* ** * *
58804484 GAACATGGAGTCGATAATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAT
66 GAACATGGAGTCGACAACATTATGAGAGCCAGTGTAAGACAATGTCTGGGACATGGCATCGACAT
* * * * * * *
58804549 TGATATGTGCGCTAGTGTAAAACCATGACTCGGACATGGCGTCAGCCACGATATGAGAGCCAGTG
131 TGAGACGGGAGCTAGCGTAAAACCATGACTCGGACATGGCATCAGCCACGACATGAGAGCCAGTG
58804614 TAAGACCATGTTTGGAACATGGCATCGGTAATGTTGTGAGAACC
196 TAAGACCATGTTTGGAACATGGCATCGGTAATGTTGTGAGAACC
* * * * *
58804658 AGTGTAAGACCATGTCTGGGACATAGCATCGGCATTGATATGTGTGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATAGCATCGGCA-CGATATGAGAGCCAATGTAAGACCATGTCT
* * * *
58804723 -GGACATGGCA-TCGGCCACATTATGAGAGCCAGTGTAAGACAATGTCTGGGGCATGGCATC-AG
65 AGAACATGG-AGTCGACAACATTATGAGAGCCAGTGTAAGACAATGTCTGGGACATGGCATCGA-
* ** * * * * *
58804785 CATTGAGACGGGAGCTAGCGTAAGACCATGTTTGGGACATGGTATCGGCCTCGACATGTGAGCCA
128 CATTGAGACGGGAGCTAGCGTAAAACCATGACTCGGACATGGCATCAGCCACGACATGAGAGCCA
*
58804850 GTTTAAGACCATGTTTGGAACATGGCATCG
193 GTGTAAGACCATGTTTGGAACATGGCATCG
58804880 TCAATTCACC
Statistics
Matches: 186, Mismatches: 33, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
238 1 0.01
239 160 0.86
240 25 0.13
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (239 bp):
AGTGTAAGACCATGTCTGGGACATAGCATCGGCACGATATGAGAGCCAATGTAAGACCATGTCTA
GAACATGGAGTCGACAACATTATGAGAGCCAGTGTAAGACAATGTCTGGGACATGGCATCGACAT
TGAGACGGGAGCTAGCGTAAAACCATGACTCGGACATGGCATCAGCCACGACATGAGAGCCAGTG
TAAGACCATGTTTGGAACATGGCATCGGTAATGTTGTGAGAACC
Found at i:58808397 original size:15 final size:15
Alignment explanation
Indices: 58808377--58808407 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58808367 AATTATGAAA
58808377 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
58808392 GATATGTTTTGTATT
1 GATATGTTTTGGATT
58808407 G
1 G
58808408 GTCTTTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:58809012 original size:41 final size:41
Alignment explanation
Indices: 58808966--58809078 Score: 172
Period size: 41 Copynumber: 2.8 Consensus size: 41
58808956 ATGTGGATGT
58808966 GTGTAAGATCATGTCTGGGACATTAGCATCGTATTTGATTC
1 GTGTAAGATCATGTCTGGGACATTAGCATCGTATTTGATTC
* *
58809007 GTGTAAGATCATGTCTGGGACATTACCATCGTATTTGATTT
1 GTGTAAGATCATGTCTGGGACATTAGCATCGTATTTGATTC
* * * *
58809048 GTGTAAGACCCTGTCTGGGACAGTGGCATCG
1 GTGTAAGATCATGTCTGGGACATTAGCATCG
58809079 ATATAAGATA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (41 bp):
GTGTAAGATCATGTCTGGGACATTAGCATCGTATTTGATTC
Found at i:58810666 original size:18 final size:18
Alignment explanation
Indices: 58810643--58810679 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
58810633 TAACTTAAGT
58810643 TATTTTTAAAAAAGATGA
1 TATTTTTAAAAAAGATGA
*
58810661 TATTTTTAAACAAGATGA
1 TATTTTTAAAAAAGATGA
58810679 T
1 T
58810680 TTGATACAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.41
Consensus pattern (18 bp):
TATTTTTAAAAAAGATGA
Found at i:58816108 original size:41 final size:42
Alignment explanation
Indices: 58816038--58816129 Score: 100
Period size: 41 Copynumber: 2.2 Consensus size: 42
58816028 GCACTTACCA
*
58816038 TGCGA-ATTGGAATAGCTTCGGCTATATGTG-GCACTAAGTG
1 TGCGATATTGAAATAGCTTCGGCTATATGTGAGCACTAAGTG
* *
58816078 TGCGATATTGAAATAGCTTCTG-TTTAATGTGATAGCACTAAGTG
1 TGCGATATTGAAATAGCTTCGGCTAT-ATGTG--AGCACTAAGTG
*
58816122 TTCGATAT
1 TGCGATAT
58816130 AGTTACAACT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
40 7 0.16
41 19 0.44
44 17 0.40
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (42 bp):
TGCGATATTGAAATAGCTTCGGCTATATGTGAGCACTAAGTG
Done.