Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 204 of 410
Found at i:62406740 original size:27 final size:26
Alignment explanation
Indices: 62406692--62406765 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
62406682 AGCATGGCTG
* * * *
62406692 CCAGAACAAATATCGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
62406718 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
62406745 CCAGAATCAGATAATGTGGCA
1 CCAGAA-CAGATATTGTGGCA
62406766 AACCCACCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.15
27 35 0.85
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:62406772 original size:27 final size:27
Alignment explanation
Indices: 62406716--62406773 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
62406706 GTGACAGAGT
* * *
62406716 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
62406743 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
62406770 CACC
1 CACC
62406774 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:62406978 original size:22 final size:22
Alignment explanation
Indices: 62406930--62406988 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
62406920 GTAAATACGT
*
62406930 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
62406952 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
62406974 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
62406989 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:62407155 original size:27 final size:26
Alignment explanation
Indices: 62407076--62407158 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
62407066 TCGATCGGTC
* * *
62407076 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
62407102 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
62407129 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
62407156 AAC
1 AAC
62407159 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:62407423 original size:54 final size:54
Alignment explanation
Indices: 62407357--62407552 Score: 257
Period size: 54 Copynumber: 3.6 Consensus size: 54
62407347 GGGGCAAAAT
* * * *
62407357 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * *
62407411 GGTATTTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * *
62407465 GGTAATTCTATCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * *
62407519 AGAAATTCTACCCTACAGGGGTATTTCAATAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
62407553 TCACAATCAA
Statistics
Matches: 121, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 121 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:62407546 original size:27 final size:27
Alignment explanation
Indices: 62407358--62407552 Score: 228
Period size: 27 Copynumber: 7.2 Consensus size: 27
62407348 GGGCAAAATG
* * * * *
62407358 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
62407385 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
62407412 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
62407439 ATAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
62407466 GTAATTCTATCCTATAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
62407493 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
62407520 GAAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
62407547 ATAATT
1 GTAATT
62407553 TCACAATCAA
Statistics
Matches: 144, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:62407587 original size:27 final size:27
Alignment explanation
Indices: 62407557--62407966 Score: 486
Period size: 27 Copynumber: 15.1 Consensus size: 27
62407547 ATAATTTCAC
* **
62407557 AATCAAGGGTAAAACGGTAATTCCATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
62407584 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
62407611 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
62407638 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
62407665 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
62407692 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
62407719 AA-CTGAGGGTAAAACTGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
62407746 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
62407773 AA-CTAAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
62407800 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
62407827 AATCGAGGGTAAAACTGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
62407854 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
62407881 AATTAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
62407908 AATCGATGGGTAAAACGGTAATTTTAAA
1 AATCGA-GGGTAAAACGGTAATTCTGTA
62407936 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
62407963 AATC
1 AATC
62407967 AGGAGTACTT
Statistics
Matches: 326, Mismatches: 48, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.02
27 288 0.88
28 31 0.10
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:62409992 original size:6 final size:6
Alignment explanation
Indices: 62409981--62410136 Score: 162
Period size: 6 Copynumber: 25.8 Consensus size: 6
62409971 AACCAAAATG
*
62409981 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
62410029 AGTAA-C AGAATC AGAATT AGTGA-C AGAATC AGAATC AGAATC AGTAA-C
1 AG-AATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AG-AATC
* *
62410077 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATT ACGTGAT- AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
62410126 AGAATC AGAAT
1 AGAATC AGAAT
62410137 GTGAATGCAA
Statistics
Matches: 128, Mismatches: 9, Indels: 26
0.79 0.06 0.16
Matches are distributed among these distances:
5 10 0.08
6 107 0.84
7 8 0.06
8 3 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:62410008 original size:24 final size:24
Alignment explanation
Indices: 62409981--62410111 Score: 185
Period size: 24 Copynumber: 5.5 Consensus size: 24
62409971 AACCAAAATG
62409981 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
* **
62410005 AGAATCAGAATCAGAATCAATATT
1 AGAATCAGAATCAGAATCAGTAAC
* *
62410029 AGTAA-CAGAATCAGAATTAGTGAC
1 AG-AATCAGAATCAGAATCAGTAAC
62410053 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
62410077 AGAATCAGAATCAGAATCAG-AATC
1 AGAATCAGAATCAGAATCAGTAA-C
62410101 AGAATCAGAAT
1 AGAATCAGAAT
62410112 TACGTGATAG
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
23 4 0.04
24 88 0.94
25 2 0.02
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.19
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:62410302 original size:27 final size:26
Alignment explanation
Indices: 62410258--62410327 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 26
62410248 TGGCTGCCAA
* * *
62410258 AACAGATATCGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
62410284 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
62410311 AATCAGATAATGTGGCA
1 AA-CAGATATTGTGGCA
62410328 AACCCACCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:62410334 original size:27 final size:27
Alignment explanation
Indices: 62410278--62410335 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
62410268 GTGACAGAGT
* * *
62410278 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
62410305 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
62410332 CACC
1 CACC
62410336 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:62410540 original size:22 final size:22
Alignment explanation
Indices: 62410492--62410550 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
62410482 GTAAATACGT
*
62410492 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
62410514 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
62410536 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
62410551 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:62410717 original size:27 final size:26
Alignment explanation
Indices: 62410638--62410720 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
62410628 TCGATCGGTC
* * *
62410638 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
62410664 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
62410691 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
62410718 AAC
1 AAC
62410721 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:62410949 original size:27 final size:27
Alignment explanation
Indices: 62410919--62411112 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
62410909 GGGGCAAAAT
* * *
62410919 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
62410946 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
62410973 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
62411000 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
62411027 GGTAATTCTATCCTATAAGGGTATTT-
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
62411053 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
62411080 AGAAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
62411106 AGTAATT
1 GGTAATT
62411113 TCACAATCAA
Statistics
Matches: 145, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
26 38 0.26
27 107 0.74
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:62411153 original size:27 final size:27
Alignment explanation
Indices: 62411117--62411525 Score: 551
Period size: 27 Copynumber: 15.2 Consensus size: 27
62411107 GTAATTTCAC
*
62411117 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
62411144 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
62411171 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
62411198 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
62411225 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
62411252 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
62411279 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
62411306 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
62411333 AA-CTGAGGGTAAAAC-GTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
62411359 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
62411386 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
62411413 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
62411440 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
62411467 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
62411494 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
62411521 AATCG
1 AATCG
62411526 GAGTACTTTG
Statistics
Matches: 337, Mismatches: 34, Indels: 22
0.86 0.09 0.06
Matches are distributed among these distances:
26 32 0.09
27 298 0.88
28 7 0.02
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:62413548 original size:6 final size:6
Alignment explanation
Indices: 62413537--62413693 Score: 155
Period size: 6 Copynumber: 25.8 Consensus size: 6
62413527 AACCAAAATG
*
62413537 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
62413585 AGTAA-C AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C
1 AG-AATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC
* *
62413634 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATT ACGTGAT- AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
62413683 AGAATC AGAAT
1 AGAATC AGAAT
62413694 GTGAATGCAA
Statistics
Matches: 128, Mismatches: 9, Indels: 28
0.78 0.05 0.17
Matches are distributed among these distances:
5 10 0.08
6 105 0.82
7 9 0.07
8 4 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:62413564 original size:24 final size:24
Alignment explanation
Indices: 62413537--62413668 Score: 178
Period size: 24 Copynumber: 5.5 Consensus size: 24
62413527 AACCAAAATG
62413537 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
* **
62413561 AGAATCAGAATCAGAATCAATATT
1 AGAATCAGAATCAGAATCAGTAAC
* *
62413585 AGTAA-CAGAATCAGAATTAGGTGAC
1 AG-AATCAGAATCAGAATCA-GTAAC
62413610 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
62413634 AGAATCAGAATCAGAATCAG-AATC
1 AGAATCAGAATCAGAATCAGTAA-C
62413658 AGAATCAGAAT
1 AGAATCAGAAT
62413669 TACGTGATAG
Statistics
Matches: 94, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
23 2 0.02
24 74 0.79
25 18 0.19
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:62413620 original size:67 final size:67
Alignment explanation
Indices: 62413537--62413693 Score: 233
Period size: 73 Copynumber: 2.3 Consensus size: 67
62413527 AACCAAAATG
*
62413537 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATC-AGA--A-T--CAGAATCAGAAT
*
62413602 TAGGTGAC
60 TACGTGAC
62413610 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATCAGAATCAGAATTACGTG
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATCAGAATCAGAATTACGTG
*
62413675 AT
66 AC
62413677 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
62413694 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
67 35 0.43
69 1 0.01
70 1 0.01
72 2 0.02
73 42 0.52
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (67 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATCAGAATCAGAATTACGTG
AC
Found at i:62413846 original size:27 final size:26
Alignment explanation
Indices: 62413809--62413874 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
62413799 AGCATGGCTG
*
62413809 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
62413835 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
62413862 CCAGAATCAGATA
1 CCAGAA-CAGATA
62413875 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:62413879 original size:27 final size:27
Alignment explanation
Indices: 62413809--62413882 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
62413799 AGCATGGCTG
* *
62413809 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
62413835 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
62413862 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
62413883 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:62413889 original size:27 final size:27
Alignment explanation
Indices: 62413833--62413890 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
62413823 GTGACAGAGT
* * *
62413833 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
62413860 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
62413887 CACC
1 CACC
62413891 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:62414095 original size:22 final size:22
Alignment explanation
Indices: 62414047--62414105 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
62414037 GTAAATACGT
*
62414047 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
62414069 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
62414091 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
62414106 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:62414272 original size:27 final size:26
Alignment explanation
Indices: 62414193--62414275 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
62414183 TCGATCGGTC
* * *
62414193 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
62414219 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
62414246 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
62414273 AAC
1 AAC
62414276 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:62414529 original size:27 final size:27
Alignment explanation
Indices: 62414473--62414667 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
62414463 GGGGCAAAAT
* * *
62414473 GGTAATTTTACCCCACAA-GGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
62414499 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
62414526 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
62414553 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
62414580 GGTAATTCTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
62414607 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
62414634 AGAAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
62414661 AGTAATT
1 GGTAATT
62414668 TCACAATCAA
Statistics
Matches: 146, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 15 0.10
27 131 0.90
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:62414665 original size:54 final size:54
Alignment explanation
Indices: 62414473--62414667 Score: 259
Period size: 54 Copynumber: 3.6 Consensus size: 54
62414463 GGGGCAAAAT
* * * *
62414473 GGTAATTTTACCCCACAA-GGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
62414526 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * * *
62414580 GGTAATTCTATCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
62414634 AGAAATTCTACCCTACAAGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
62414668 TCACAATCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
53 16 0.13
54 106 0.86
55 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:62414708 original size:27 final size:27
Alignment explanation
Indices: 62414672--62415081 Score: 508
Period size: 27 Copynumber: 15.2 Consensus size: 27
62414662 GTAATTTCAC
*
62414672 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
62414699 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
62414726 AA-CTTAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
62414753 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
62414780 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
62414807 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
62414834 AA-CTGAGGGTAAAACGGTAATTCTGAA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
62414861 AATTGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
62414888 AA-CTGAGGGT-AAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
62414914 AATCGAGGGTAAAACGGCAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
62414941 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
62414968 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
62414995 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
62415022 AATCGATGGGTAAAACGGTAATTTTAAA
1 AATCGA-GGGTAAAACGGTAATTCTGTA
62415050 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
62415077 AATCG
1 AATCG
62415082 GGAGTACTTT
Statistics
Matches: 329, Mismatches: 42, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
26 29 0.09
27 270 0.82
28 30 0.09
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:62416213 original size:37 final size:36
Alignment explanation
Indices: 62416162--62416269 Score: 107
Period size: 37 Copynumber: 2.9 Consensus size: 36
62416152 ATTCCAAAAA
*
62416162 TAATATTATTTTAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTTTAATATT-AATTTAATAT
*
62416198 TAATACTTATCTTAATAGTATT-TTATTAATTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTAATAT
*
62416235 TAACCTAATTATCTTAA-ATTTTAAT-TTAATTTAAT
1 TAA--T-ATTATCTTAATAGTTTAATATTAATTTAAT
62416270 GTTTAAATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
36 13 0.21
37 32 0.52
38 5 0.08
39 10 0.16
40 1 0.02
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATAT
Found at i:62423841 original size:18 final size:18
Alignment explanation
Indices: 62423814--62423848 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
62423804 TCGAGATGGT
62423814 TGTGGGCATGG-AGTAAA
1 TGTGGGCATGGTAGTAAA
62423831 TGTGTGGCATGGTAGTAA
1 TGTG-GGCATGGTAGTAA
62423849 GATGATAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.26, C:0.06, G:0.40, T:0.29
Consensus pattern (18 bp):
TGTGGGCATGGTAGTAAA
Found at i:62425917 original size:26 final size:26
Alignment explanation
Indices: 62425888--62425940 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
62425878 TTGTTTTCCA
62425888 TCTTTTATCCAATTATTCTCATTAAT
1 TCTTTTATCCAATTATTCTCATTAAT
62425914 TCTTTTATCCAATTATTCTCATTAAT
1 TCTTTTATCCAATTATTCTCATTAAT
62425940 T
1 T
62425941 TTTCCATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.55
Consensus pattern (26 bp):
TCTTTTATCCAATTATTCTCATTAAT
Found at i:62439362 original size:21 final size:21
Alignment explanation
Indices: 62439339--62439380 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
62439329 TAACGAAACA
*
62439339 ATATAAATGATATACAAAATAAT
1 ATATATATGA-ATA-AAAATAAT
62439362 ATATATATGAATAAAAATA
1 ATATATATGAATAAAAATA
62439381 TACATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 3 0.17
23 9 0.50
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (21 bp):
ATATATATGAATAAAAATAAT
Found at i:62439948 original size:12 final size:12
Alignment explanation
Indices: 62439931--62439958 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
62439921 GGATCTTCAT
62439931 GGGTAGTGGATC
1 GGGTAGTGGATC
62439943 GGGTAGTGGATC
1 GGGTAGTGGATC
62439955 GGGT
1 GGGT
62439959 TGAAACGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.54, T:0.25
Consensus pattern (12 bp):
GGGTAGTGGATC
Found at i:62440486 original size:3 final size:3
Alignment explanation
Indices: 62440478--62440502 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
62440468 GAATAAAAAG
62440478 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
62440503 CAAGAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:62441249 original size:44 final size:45
Alignment explanation
Indices: 62441188--62441284 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 45
62441178 ACTGCTTAAG
* ** **
62441188 GAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCA-A
1 GAGATAAGATCTACAATCGCCAACCTGCTTCCTTGCTACCTCAGA
*
62441232 GAAGATAAGA-CTACAATCGCCAACCTGCTTTCTTGCTACCTCAGA
1 G-AGATAAGATCTACAATCGCCAACCTGCTTCCTTGCTACCTCAGA
62441277 GAGATAAG
1 GAGATAAG
62441285 GCTAGTGGCT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 35 0.78
45 10 0.22
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (45 bp):
GAGATAAGATCTACAATCGCCAACCTGCTTCCTTGCTACCTCAGA
Found at i:62443272 original size:177 final size:176
Alignment explanation
Indices: 62442733--62443289 Score: 830
Period size: 177 Copynumber: 3.1 Consensus size: 176
62442723 CGGTTTATCA
* * *
62442733 ATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTAACTCAGGAAGATAAGACTACAATCGCCAAC
1 ATAAGATCTTTAATCTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAAC
* *
62442798 CTGCTCTCTTGCTACCTTAGAGAGATAAGGCTAGTGGCTAAAATCTGTTCCATTG-CTGATACAT
66 CTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCT-CATTGCCT-ATACAT
*
62442862 GGAGATAAGATTCGCCATCTTCGGTCTGCTCTACTACTGCTTAGGGAG
129 GGAGATAAGATTCGCCATCTTCGATCTGCTCTACTACTGCTTAGGGAG
* * *
62442910 ATAAGAT-TTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAAAAAAGACTACAATCGCCAA
1 ATAAGATCTTT-AATCTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAA
* ** * * *
62442974 CCTACTCTCTTGCTACCCCAGAAAGATAAGGCTGGTGGCTAAAATCTACTCTATTGCCGATACAT
65 CCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTC-ATTGCCTATACAT
*
62443039 GGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAG
129 GGAGATAAGATTCGCCATCTTCGATCTGCTCTACTACTGCTTAGGGAG
* * *
62443087 ATAAGATCTTTAATCTTCAGTCTACTTCCTTACTACCTCAGGAAGATAAGACTACAATTGTCAAC
1 ATAAGATCTTTAATCTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAAC
**
62443152 CTGCTCGGTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTGCATTGCCTATACATG
66 CTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCT-CATTGCCTATACATG
*
62443217 GAGATAAGATTCGTCATCTTCGATCTGCTCTACTACTGCTTAGGGAG
130 GAGATAAGATTCGCCATCTTCGATCTGCTCTACTACTGCTTAGGGAG
* * *
62443264 AAAAGATCTGTAATTTTCAGTCTACT
1 ATAAGATCTTTAATCTTCAGTCTACT
62443290 CCACTGGTAA
Statistics
Matches: 342, Mismatches: 33, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
176 3 0.01
177 334 0.98
178 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (176 bp):
ATAAGATCTTTAATCTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAAC
CTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCATTGCCTATACATGG
AGATAAGATTCGCCATCTTCGATCTGCTCTACTACTGCTTAGGGAG
Found at i:62443511 original size:57 final size:57
Alignment explanation
Indices: 62443423--62443533 Score: 204
Period size: 57 Copynumber: 1.9 Consensus size: 57
62443413 GTGCTTATGC
62443423 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGATT
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGATT
* *
62443480 CAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTG
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
62443534 TTATGAATGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.30
Consensus pattern (57 bp):
CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGATT
Found at i:62445288 original size:16 final size:16
Alignment explanation
Indices: 62445260--62445292 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
62445250 CACTATAACC
62445260 TTTGTTTTATTATTTT
1 TTTGTTTTATTATTTT
62445276 TTTGTATTT-TTATTTT
1 TTTGT-TTTATTATTTT
62445292 T
1 T
62445293 CTTTTTGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (16 bp):
TTTGTTTTATTATTTT
Found at i:62448120 original size:19 final size:19
Alignment explanation
Indices: 62448079--62448120 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
62448069 GTAAAAATCT
*
62448079 AATGCAGATGATGCAATGC
1 AATGCAAATGATGCAATGC
*
62448098 AATGCAAATGCATGGAATG-
1 AATGCAAATG-ATGCAATGC
62448117 AATG
1 AATG
62448121 TAAAAGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.21
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:62452119 original size:14 final size:15
Alignment explanation
Indices: 62452100--62452128 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62452090 TTGGACTTTA
62452100 ATTTTGGTTT-TTTT
1 ATTTTGGTTTATTTT
62452114 ATTTTGGTTTATTTT
1 ATTTTGGTTTATTTT
62452129 GTTTATTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.10, C:0.00, G:0.14, T:0.76
Consensus pattern (15 bp):
ATTTTGGTTTATTTT
Found at i:62453048 original size:19 final size:19
Alignment explanation
Indices: 62453009--62453048 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
62452999 GCTTTACTCA
* *
62453009 AAGTATCTATATTTTGGTC
1 AAGTATCTATACTTTCGTC
*
62453028 AAGTATCTATACTTTCTTC
1 AAGTATCTATACTTTCGTC
62453047 AA
1 AA
62453049 CATGCCGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (19 bp):
AAGTATCTATACTTTCGTC
Found at i:62455349 original size:58 final size:58
Alignment explanation
Indices: 62455259--62455376 Score: 193
Period size: 58 Copynumber: 2.0 Consensus size: 58
62455249 ACTTGCATCC
*
62455259 TCTTTGTTACCACAAAAACATTAATGTCAACTCAGTTAAAACTT-AATAAATTGATTAA
1 TCTTTGTTACCACAAAAACAATAATGTCAACTCAGTTAAAA-TTCAATAAATTGATTAA
* *
62455317 TCTTTGTTGCCACAATAACAATAATGTCAACTCAGTTAAAATTCAATAAATTGATTAA
1 TCTTTGTTACCACAAAAACAATAATGTCAACTCAGTTAAAATTCAATAAATTGATTAA
62455375 TC
1 TC
62455377 GAAATTTACA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 2 0.04
58 54 0.96
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.35
Consensus pattern (58 bp):
TCTTTGTTACCACAAAAACAATAATGTCAACTCAGTTAAAATTCAATAAATTGATTAA
Found at i:62456898 original size:17 final size:19
Alignment explanation
Indices: 62456872--62456908 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
62456862 TAGGCAAAAA
62456872 AAAAAAATTA-T-TAATTT
1 AAAAAAATTAGTATAATTT
*
62456889 AAAAAGATTAGTATAATTT
1 AAAAAAATTAGTATAATTT
62456908 A
1 A
62456909 GATACCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 1 0.06
19 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
AAAAAAATTAGTATAATTT
Found at i:62462329 original size:15 final size:15
Alignment explanation
Indices: 62462306--62462355 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
62462296 TTTATCAAAT
62462306 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* *
62462321 TTATTTTGATTGAAT
1 TTATATTGATTGAAA
62462336 TTATATTGATTGAAA
1 TTATATTGATTGAAA
62462351 TTATA
1 TTATA
62462356 ATATATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:62462363 original size:2 final size:2
Alignment explanation
Indices: 62462352--62462389 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
62462342 TGATTGAAAT
62462352 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62462390 GATCTATGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62462916 original size:21 final size:23
Alignment explanation
Indices: 62462874--62462916 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
62462864 TAATATTCCG
*
62462874 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTAGGATATTCT
62462897 GGTGTGTTTGGG-AGGA-ATTC
1 GGTGTGTTTGGGTAGGATATTC
62462917 GCGTATCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 12 0.63
ACGTcount: A:0.12, C:0.05, G:0.42, T:0.42
Consensus pattern (23 bp):
GGTGTGTTTGGGTAGGATATTCT
Found at i:62463034 original size:18 final size:19
Alignment explanation
Indices: 62463013--62463053 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
62463003 AATGAAATGA
62463013 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
62463031 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
62463050 GAAA
1 GAAA
62463054 ATATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:62467610 original size:21 final size:22
Alignment explanation
Indices: 62467583--62467639 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
62467573 ATATATTAAA
62467583 TTATTATTATTATTTATTATAG
1 TTATTATTATTATTTATTATAG
* *
62467605 TT-TTA-TATTTAATTATTATTG
1 TTATTATTA-TTATTTATTATAG
*
62467626 TTATTGTTATTATT
1 TTATTATTATTATT
62467640 ATTTAAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 2 0.07
21 16 0.57
22 8 0.29
23 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TTATTATTATTATTTATTATAG
Found at i:62468180 original size:15 final size:15
Alignment explanation
Indices: 62468132--62468181 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
62468122 TTTACCAAAT
62468132 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * *
62468147 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
62468162 TTATATTGATTGAAA
1 TTATATTGATTGAAA
62468177 TTATA
1 TTATA
62468182 ATATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:62468189 original size:2 final size:2
Alignment explanation
Indices: 62468178--62468207 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
62468168 TGATTGAAAT
62468178 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62468208 GATCTATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62468723 original size:23 final size:24
Alignment explanation
Indices: 62468682--62468726 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
62468672 GGAGGATTTA
*
62468682 TAATATTCCGGGTGTGTTTGGGTT
1 TAATATTCCGGGTGCGTTTGGGTT
62468706 TAATATTCC-GGTGCGTTTGGG
1 TAATATTCCGGGTGCGTTTGGG
62468727 AGGAATCCGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.13, C:0.11, G:0.33, T:0.42
Consensus pattern (24 bp):
TAATATTCCGGGTGCGTTTGGGTT
Found at i:62468852 original size:18 final size:19
Alignment explanation
Indices: 62468831--62468871 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
62468821 AATGAAATGA
62468831 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
62468849 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
62468868 GAAA
1 GAAA
62468872 ATATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:62470174 original size:49 final size:49
Alignment explanation
Indices: 62470008--62470245 Score: 305
Period size: 49 Copynumber: 4.8 Consensus size: 49
62469998 TGAGGTCGCA
* * * *
62470008 TGTGTAGTACTAAGTGCAGGCTAGTATGCGTACCCGAAAATTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTG-G-TCACG
* * * **
62470059 TGTGTTGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTCACG
*
62470109 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
* * * *
62470158 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
* *
62470207 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
62470246 GCTTTGGCTA
Statistics
Matches: 164, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 88 0.54
50 41 0.25
51 34 0.21
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
Found at i:62483870 original size:14 final size:14
Alignment explanation
Indices: 62483847--62483881 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
62483837 TTCCTTCCGC
*
62483847 CATTTCTGCCTTTT
1 CATTTTTGCCTTTT
62483861 CATTTTTGCCTTTT
1 CATTTTTGCCTTTT
62483875 CATTTTT
1 CATTTTT
62483882 TTTGGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.09, C:0.23, G:0.06, T:0.63
Consensus pattern (14 bp):
CATTTTTGCCTTTT
Found at i:62487399 original size:44 final size:46
Alignment explanation
Indices: 62487349--62487436 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 46
62487339 ACATCATTTT
*
62487349 ATTCAACCAAACACAAGAA-TAC-TATTACAGTTCTATTCCATTCC
1 ATTCAACCAAACACAAGAATTACTTATTACAGCTCTATTCCATTCC
***
62487393 ATTCAACCAAACAGTTGAATTACTTATTACAGCTCTATTCCATT
1 ATTCAACCAAACACAAGAATTACTTATTACAGCTCTATTCCATT
62487437 ACAGCTCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 16 0.42
45 3 0.08
46 19 0.50
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (46 bp):
ATTCAACCAAACACAAGAATTACTTATTACAGCTCTATTCCATTCC
Found at i:62487439 original size:16 final size:16
Alignment explanation
Indices: 62487418--62487487 Score: 88
Period size: 16 Copynumber: 4.4 Consensus size: 16
62487408 TGAATTACTT
62487418 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
62487434 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
* *
62487450 AGTACAGCTCCA-TCC
1 ATTACAGCTCTATTCC
*
62487465 AATTACAGCCCTATTCC
1 -ATTACAGCTCTATTCC
62487482 ATTACA
1 ATTACA
62487488 ATGAACCAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
15 2 0.04
16 40 0.89
17 3 0.07
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.31
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:62487908 original size:23 final size:23
Alignment explanation
Indices: 62487880--62487928 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
62487870 AATGCATAGA
62487880 AGAAAAGAAAAC-CAAAATTGTCC
1 AGAAAA-AAAACTCAAAATTGTCC
* *
62487903 AGAAAAAAAACTCAAATTTGTGC
1 AGAAAAAAAACTCAAAATTGTCC
62487926 AGA
1 AGA
62487929 GATTTGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.16
Consensus pattern (23 bp):
AGAAAAAAAACTCAAAATTGTCC
Found at i:62490379 original size:22 final size:22
Alignment explanation
Indices: 62490342--62490388 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
62490332 CTTTGATCAC
62490342 ATACAAAATTTACATTCA-CAA
1 ATACAAAATTTACATTCAGCAA
* *
62490363 ATACCAAATTTACCATTTAGCAA
1 ATACAAAATTTA-CATTCAGCAA
62490386 ATA
1 ATA
62490389 GCATCATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 5 0.23
23 6 0.27
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (22 bp):
ATACAAAATTTACATTCAGCAA
Found at i:62492615 original size:43 final size:42
Alignment explanation
Indices: 62492555--62492643 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 42
62492545 TCTTATAAAA
* * *
62492555 AATCATATACGATGCCAATGTCCGAGACATGGTCTAACATGT
1 AATCATATACAATGCCAATGTCCCAGACATGGTCTAACATAT
*
62492597 AATCATAATACAATGCCAATGTCCCAGACATGGTCTTACATAT
1 AATCAT-ATACAATGCCAATGTCCCAGACATGGTCTAACATAT
62492640 AATC
1 AATC
62492644 TCATCTCAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 6 0.14
43 36 0.86
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (42 bp):
AATCATATACAATGCCAATGTCCCAGACATGGTCTAACATAT
Found at i:62497955 original size:93 final size:93
Alignment explanation
Indices: 62497843--62498015 Score: 312
Period size: 93 Copynumber: 1.9 Consensus size: 93
62497833 CGCCCATAAG
*
62497843 CGAACTCGGACTCAACTCAACGAGCTCTGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACGCTCGCATCCATAAGTGAACTCGGACTCAACTC
62497907 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
62497936 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
62498001 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
62498016 CAAATATCCC
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
92 2 0.03
93 75 0.97
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:62498009 original size:46 final size:46
Alignment explanation
Indices: 62497836--62498011 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
62497826 TGTAACCCGC
* *
62497836 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCTGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACGCTCGCAT
* * *
62497882 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
*
62497932 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
62497975 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
62498012 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 4 0.04
46 65 0.59
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:62498030 original size:46 final size:45
Alignment explanation
Indices: 62497887--62498030 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
62497877 CGCATCCATA
* *
62497887 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
62497935 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
62497980 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
62498026 AGTGA
1 AGTGA
62498031 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:62499976 original size:16 final size:16
Alignment explanation
Indices: 62499946--62499975 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62499936 TATTTATTCA
62499946 TATATATATTGTTTTG
1 TATATATATTGTTTTG
62499962 TATATATATT-TTTT
1 TATATATATTGTTTT
62499976 TTACACTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (16 bp):
TATATATATTGTTTTG
Found at i:62503757 original size:37 final size:37
Alignment explanation
Indices: 62503716--62503792 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
62503706 CAGGTATGTG
*
62503716 ATATATATATTATTTATGTAAGATTGATCTGATGAGA
1 ATATATATATTATTTATGTAAGATTGATCTGACGAGA
* *
62503753 ATATATATATTATTTATGTGAGATTGATTTGACGAGA
1 ATATATATATTATTTATGTAAGATTGATCTGACGAGA
62503790 ATA
1 ATA
62503793 AAGAATGTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.43
Consensus pattern (37 bp):
ATATATATATTATTTATGTAAGATTGATCTGACGAGA
Found at i:62506718 original size:30 final size:30
Alignment explanation
Indices: 62506652--62506719 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
62506642 GTCGAAACAC
* * * *
62506652 ATTCTCATGCATATTGATTTAATCTCACAA
1 ATTCTCGTGCACATTAACTTAATCTCACAA
62506682 ATTCTCGTGCACATTAACTTAATCTCACAA
1 ATTCTCGTGCACATTAACTTAATCTCACAA
62506712 ATTCTCGT
1 ATTCTCGT
62506720 TCGTAATTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
ATTCTCGTGCACATTAACTTAATCTCACAA
Found at i:62509523 original size:48 final size:48
Alignment explanation
Indices: 62509469--62509583 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
62509459 AGATCCCGTA
*
62509469 TAAGACCATATCTGGGATATGACATCGGCATCGATATGTGAACCCATG
1 TAAGACCATATCTGGGACATGACATCGGCATCGATATGTGAACCCATG
* * * * * *
62509517 TAAGACCATGTCTGGGACATGGCATTGGCATTGTTATGTGATCCCATG
1 TAAGACCATATCTGGGACATGACATCGGCATCGATATGTGAACCCATG
* *
62509565 TAAGACCATGTTTGGGACA
1 TAAGACCATATCTGGGACA
62509584 GGACGCCAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (48 bp):
TAAGACCATATCTGGGACATGACATCGGCATCGATATGTGAACCCATG
Found at i:62517012 original size:48 final size:48
Alignment explanation
Indices: 62516950--62517194 Score: 214
Period size: 48 Copynumber: 5.2 Consensus size: 48
62516940 AGATCTCGTA
* * **
62516950 TAAGACCATATCTGGGATATGACATCAGCATCGATAAGTGATCCCATG
1 TAAGACCATGTCTGGGACATGACATTGGCATCGATAAGTGATCCCATG
* * * * **
62516998 TAATACCATGTCTGGGACATGTCATTGGCATCGTTATGTGATCTTATG
1 TAAGACCATGTCTGGGACATGACATTGGCATCGATAAGTGATCCCATG
* * * * * ***
62517046 TAAGACTATGTCTGGGACATGGCATTGGCATCGATATGAGAACATTGTG
1 TAAGACCATGTCTGGGACATGACATTGGCATCGATAAGTGATC-CCATG
* * * *
62517095 TAAGACCATAG-CTGGG-C-T---ATTGGCTTCAATATGTTATCCCATG
1 TAAGACCAT-GTCTGGGACATGACATTGGCATCGATAAGTGATCCCATG
* *
62517138 TAAGACCATGTCTGGGACATGGCATTGGCATCGATAAGTGGTCCCATG
1 TAAGACCATGTCTGGGACATGACATTGGCATCGATAAGTGATCCCATG
62517186 TAAGACCAT
1 TAAGACCAT
62517195 ATTCGGGATA
Statistics
Matches: 158, Mismatches: 31, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
42 1 0.01
43 16 0.10
44 16 0.10
45 1 0.01
47 1 0.01
48 105 0.66
49 17 0.11
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGACATTGGCATCGATAAGTGATCCCATG
Found at i:62519281 original size:43 final size:43
Alignment explanation
Indices: 62519231--62519385 Score: 179
Period size: 43 Copynumber: 3.6 Consensus size: 43
62519221 CAATGCCATA
* * * *
62519231 TCCCAGACATGGTCATACATGTTATCATATATCAATGCCAACG
1 TCCCAGACATGGTCTTACATGTAATCATATATCAATGCTAATG
* * * **
62519274 TCCCAGACGTGGTCTTACACGAAATCATATAAT-GGTGCTAATG
1 TCCCAGACATGGTCTTACATGTAATCATAT-ATCAATGCTAATG
* *
62519317 TCCCCGACATGGTCTTACATGTAATCACA-ATACAATGCTAATG
1 TCCCAGACATGGTCTTACATGTAATCATATAT-CAATGCTAATG
62519360 TCCCAGACATGGTCTTACATGTAATC
1 TCCCAGACATGGTCTTACATGTAATC
62519386 TCATCTCAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.02
43 88 0.96
44 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAATCATATATCAATGCTAATG
Found at i:62528204 original size:16 final size:16
Alignment explanation
Indices: 62528183--62528213 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
62528173 CAAACTCACG
62528183 CTCGTATTCAGTTACA
1 CTCGTATTCAGTTACA
62528199 CTCGTATTCAGTTAC
1 CTCGTATTCAGTTAC
62528214 GGTCATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.39
Consensus pattern (16 bp):
CTCGTATTCAGTTACA
Found at i:62531633 original size:80 final size:80
Alignment explanation
Indices: 62531549--62531697 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
62531539 TATGGTAACC
* * * *
62531549 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
62531613 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
62531629 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
62531694 CCGG
66 CCGG
62531698 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:62531639 original size:40 final size:38
Alignment explanation
Indices: 62531590--62531697 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
62531580 ATCACGATTT
*
62531590 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
62531630 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
62531670 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
62531698 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:62539749 original size:80 final size:80
Alignment explanation
Indices: 62539665--62539813 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
62539655 TATGGTAACC
* * * *
62539665 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
62539729 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
62539745 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
62539810 CCGG
66 CCGG
62539814 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:62539755 original size:40 final size:38
Alignment explanation
Indices: 62539706--62539813 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
62539696 ATCACGATTT
*
62539706 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
62539746 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
62539786 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
62539814 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:62541625 original size:48 final size:47
Alignment explanation
Indices: 62541549--62541873 Score: 291
Period size: 48 Copynumber: 6.8 Consensus size: 47
62541539 CATAGTAGGG
* * * * * *
62541549 TGCCAATGCCATATCTCGGATATGGTCTTACATGGGACCACTTATAGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATA-AGA
* * * *
62541597 TGCCAACGCCATGCCCCAGACATTGTCTTACATGGGATCACACAA-A
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAAGA
* * ** ** *
62541643 T-CGAA-GCCGATAG-CCCAG-CTATGGTCTTACACGATACTTTCATATCGA
1 TGCCAATGCC-AT-GTCCCAGAC-ATGGTCTTACATGGGA-TCACATA-AGA
*
62541691 TGCCAATGCCATGTCCCAGACATGGTCTTACATTGGATCACATAACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAA-GA
62541739 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAA-GA
* * * * *
62541787 TGCTAATACCATGTCCTAGACATGGTCTTACATGGGATCAAATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATA-AGA
* * * *
62541835 TGCCGATGCCATATCCCAGATATGGTCTTATATGGGATC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
62541874 TCATCAACTC
Statistics
Matches: 225, Mismatches: 40, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
44 4 0.02
45 22 0.10
46 7 0.03
47 1 0.00
48 165 0.73
49 22 0.10
50 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (47 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAAGA
Found at i:62547978 original size:20 final size:20
Alignment explanation
Indices: 62547953--62547992 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
62547943 ATTGGGCCTT
62547953 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTTGG
*
62547973 GCCCATTTCAATACAGTTGG
1 GCCCATTTCAACACAGTTGG
62547993 CCTATAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (20 bp):
GCCCATTTCAACACAGTTGG
Found at i:62550274 original size:3 final size:3
Alignment explanation
Indices: 62550266--62550334 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
62550256 AAACATACTA
62550266 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
62550314 AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
62550335 CAAAACATCC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:62551854 original size:33 final size:33
Alignment explanation
Indices: 62551813--62551925 Score: 108
Period size: 33 Copynumber: 3.4 Consensus size: 33
62551803 TATATGTATA
62551813 AGTGTAAGACCATATCTGGGCTATGGCATCT-TG
1 AGTGTAAGACCATATCTGGGCTATGGCAT-TATG
* *
62551846 A-TGATAAGACCATAAT-TGGGTTATGGTATTATG
1 AGTG-TAAGACCAT-ATCTGGGCTATGGCATTATG
** * *
62551879 AGTGTAAGACCATGGCTGGGCCATGGCAATAT-
1 AGTGTAAGACCATATCTGGGCTATGGCATTATG
62551911 ACGTGTAAGACCATA
1 A-GTGTAAGACCATA
62551926 GTTGGACTGT
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
32 4 0.06
33 57 0.88
34 4 0.06
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (33 bp):
AGTGTAAGACCATATCTGGGCTATGGCATTATG
Found at i:62551859 original size:105 final size:101
Alignment explanation
Indices: 62551681--62551871 Score: 258
Period size: 105 Copynumber: 1.9 Consensus size: 101
62551671 GACAGATAAT
*
62551681 ACCATGGTTGGACAATGGCAATATTTAAATGTAAGACCATAGCTGGGCTATGGCATTTCAGTGAA
1 ACCATGGTTGGACAATGACAATATTTAAATGTAAGACCATAGCTGGGCTATGGCATTTCAGTGAA
62551746 AAGACCATAACTGGATTATGGCACCGTGAACGTAAG
66 AAGACCATAACTGGATTATGGCACCGTGAACGTAAG
* * * *
62551782 ACCATGGTTGGACCATGACAGTATATGTATAAGTGTAAGACCATATCTGGGCTATGGCATCTTGA
1 ACCATGGTTGGACAATGACA--ATAT-T-TAAATGTAAGACCATAGCTGGGCTATGGCAT-TTCA
* * *
62551847 -TGATAAGACCATAATTGGGTTATGG
61 GTGAAAAGACCATAACTGGATTATGG
62551872 TATTATGAGT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
101 18 0.23
103 4 0.05
104 1 0.01
105 51 0.66
106 3 0.04
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (101 bp):
ACCATGGTTGGACAATGACAATATTTAAATGTAAGACCATAGCTGGGCTATGGCATTTCAGTGAA
AAGACCATAACTGGATTATGGCACCGTGAACGTAAG
Found at i:62551892 original size:105 final size:101
Alignment explanation
Indices: 62551681--62551926 Score: 255
Period size: 105 Copynumber: 2.4 Consensus size: 101
62551671 GACAGATAAT
* *
62551681 ACCATGGTTGGACAATGGCAATATTTAAATGTAAGACCATAGCTGGGCTATGGCATTTCAGTGAA
1 ACCATGGTTGGACCATGACAATATTTAAATGTAAGACCATAGCTGGGCTATGGCATTTCAGTGAA
*
62551746 AAGACCATAACTGGATTATGGCACCGTGAACGTAAG
66 AAGACCATAACTGGATTATGGCACCATGAACGTAAG
* * *
62551782 ACCATGGTTGGACCATGACAGTATATGTATAAGTGTAAGACCATATCTGGGCTATGGCATCTTGA
1 ACCATGGTTGGACCATGACA--ATAT-T-TAAATGTAAGACCATAGCTGGGCTATGGCAT-TTCA
* * * * ** **
62551847 -TGATAAGACCATAATTGGGTTATGGTATTATGAGTGTAAG
61 GTGAAAAGACCATAACTGGATTATGGCACCATGAACGTAAG
* * * **
62551887 ACCATGGCTGGGCCATGGCAATA--TACGTGTAAGACCATAG
1 ACCATGGTTGGACCATGACAATATTTAAATGTAAGACCATAG
62551927 TTGGACTGTA
Statistics
Matches: 121, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
99 15 0.12
101 18 0.15
103 7 0.06
104 1 0.01
105 77 0.64
106 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (101 bp):
ACCATGGTTGGACCATGACAATATTTAAATGTAAGACCATAGCTGGGCTATGGCATTTCAGTGAA
AAGACCATAACTGGATTATGGCACCATGAACGTAAG
Found at i:62561956 original size:40 final size:40
Alignment explanation
Indices: 62561890--62561983 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
62561880 GACTATGTTC
*
62561890 GGCACTAAGTGTGCAATTTGATATAGTTACGGCTATAAAT-A
1 GGCACTAAGTGTGCAATTGGATATAGTTACGGCTAT--ATGA
* **
62561931 -GCACTAAGTGTGTGAATTGGA-ATAGTTTTGGCTATATGA
1 GGCACTAAGTGTG-CAATTGGATATAGTTACGGCTATATGA
62561970 GGCACTAAGTGTGC
1 GGCACTAAGTGTGC
62561984 GATACCGAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 36 0.80
41 6 0.13
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.32
Consensus pattern (40 bp):
GGCACTAAGTGTGCAATTGGATATAGTTACGGCTATATGA
Found at i:62566593 original size:43 final size:42
Alignment explanation
Indices: 62566503--62566624 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
62566493 TCACATATCG
* * * * * *
62566503 ATGCCACTGTGCCAGATAGGGTCTTACACGAAATCGATTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC-ATTAACA
62566546 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC-TTAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCATT-A-ACA
* * *
62566589 ATGCCAATGTCCTAGACATGGTTTTACATGTAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
62566625 CATCTCAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
41 2 0.03
42 1 0.01
43 64 0.96
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCATTAACA
Found at i:62575851 original size:40 final size:40
Alignment explanation
Indices: 62575774--62575994 Score: 272
Period size: 40 Copynumber: 5.5 Consensus size: 40
62575764 ACCCAAGTAT
* *
62575774 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCAA-TAGCACAAATGC
*
62575813 CTTCGGGTCTTAGCCCGGATATAGTCAATAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATGC
* *
62575853 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATGC
*
62575893 CTTCAGGTCTTAGCCCGGATATAG-CAACTCA-CACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAA-T-AGCACAAATGC
* * * *
62575933 CTTCGGATCTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATGC
*
62575973 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
62575995 CATTCGAATA
Statistics
Matches: 158, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 137 0.87
41 6 0.04
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATGC
Found at i:62579013 original size:40 final size:40
Alignment explanation
Indices: 62578968--62579135 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
62578958 CGGAATACAA
*
62578968 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
62579008 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
62579048 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
62579088 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
62579128 CCGGATAT
1 CCGGATAT
62579136 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:62579108 original size:80 final size:80
Alignment explanation
Indices: 62578968--62579135 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
62578958 CGGAATACAA
* * *
62578968 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
62579033 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
62579048 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
62579111 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
62579128 CCGGATAT
1 CCGGATAT
62579136 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:62587023 original size:40 final size:40
Alignment explanation
Indices: 62586978--62587145 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
62586968 CGGAATACAA
*
62586978 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
62587018 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
62587058 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
62587098 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
62587138 CCGGATAT
1 CCGGATAT
62587146 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:62587118 original size:80 final size:80
Alignment explanation
Indices: 62586978--62587145 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
62586968 CGGAATACAA
* * *
62586978 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
62587043 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
62587058 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
62587121 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
62587138 CCGGATAT
1 CCGGATAT
62587146 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:62594983 original size:22 final size:22
Alignment explanation
Indices: 62594958--62595001 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
62594948 AATTAGTTTC
*
62594958 GACTAAA-GTATAACATTCATAT
1 GACTAAATGAATAAC-TTCATAT
62594980 GACTAAATGAATAACTTCATAT
1 GACTAAATGAATAACTTCATAT
62595002 ATGCACATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (22 bp):
GACTAAATGAATAACTTCATAT
Found at i:62595306 original size:40 final size:40
Alignment explanation
Indices: 62595258--62595449 Score: 303
Period size: 40 Copynumber: 4.8 Consensus size: 40
62595248 ATAACAACTC
62595258 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* * *
62595298 GCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* *
62595338 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* *
62595378 GCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* *
62595418 GCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
62595450 CATTCGAATA
Statistics
Matches: 136, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
Found at i:62595386 original size:80 final size:80
Alignment explanation
Indices: 62595234--62595449 Score: 305
Period size: 80 Copynumber: 2.7 Consensus size: 80
62595224 AGTATCTTTG
* * *
62595234 GGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAC
1 GGATCTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAAC
*
62595296 TAGCATAAATGCCTTC
65 TAGCACAAATGCCTTC
*
62595312 GGGA-CTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAAC
1 -GGATCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAAC
*
62595376 TCGCACAAATGCCTTC
65 TAGCACAAATGCCTTC
* * *
62595392 GGATCTTAGTCCGGATATAGTCACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GGATCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
62595450 CATTCGAATA
Statistics
Matches: 123, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
79 10 0.08
80 112 0.91
81 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
GGATCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAACT
AGCACAAATGCCTTC
Found at i:62599246 original size:25 final size:25
Alignment explanation
Indices: 62599203--62599272 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
62599193 TTGTACATGT
* *
62599203 ATGCTCATACAAGCCGTGAATCAAA
1 ATGCTCACACAAGCTGTGAATCAAA
* * *
62599228 ATGTTCACACAAGCTGTGAATTAGA
1 ATGCTCACACAAGCTGTGAATCAAA
* *
62599253 ATGCTCACACGAGCTATGAA
1 ATGCTCACACAAGCTGTGAA
62599273 AGTAGGCCTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (25 bp):
ATGCTCACACAAGCTGTGAATCAAA
Found at i:62600847 original size:46 final size:46
Alignment explanation
Indices: 62600710--62600877 Score: 134
Period size: 46 Copynumber: 3.6 Consensus size: 46
62600700 CACATTATGA
*
62600710 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGA--T
1 AAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGTA-TGAGATGT
* * * *
62600756 AAGTGCTAGTGTAGGA-CAAGTTTGGGACATGCATC-G-ACCTCGAGATGT
1 AA--GCCAGTGTAAGACCATGTCTGGGACATGCATCAGTA--T-GAGATGT
* *
62600804 AAGCCAGTGTAAGA-CATGTTTGGGACATGCGTCAGTTATGAGATG-
1 AAGCCAGTGTAAGACCATGTCTGGGACATGCATCAG-TATGAGATGT
*
62600849 ATAGTCAGTGTAAGACCATGTCTGGGACA
1 A-AGCCAGTGTAAGACCATGTCTGGGACA
62600878 CAGCATCAAC
Statistics
Matches: 100, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 56 0.56
47 26 0.26
48 13 0.13
49 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (46 bp):
AAGCCAGTGTAAGACCATGTCTGGGACATGCATCAGTATGAGATGT
Found at i:62600884 original size:94 final size:94
Alignment explanation
Indices: 62600710--62600884 Score: 207
Period size: 93 Copynumber: 1.9 Consensus size: 94
62600700 CACATTATGA
*
62600710 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGATAAGTGCTAGTGTAGGACAA
1 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGATAAGTGCTAGTGTAAGACAA
* *
62600775 GTTTGGGACATGCATCGACCTCGAGATGT
66 GTCTGGGACAAGCATCGACCTCGAGATGT
* * *
62600804 AAGCCAGTGTAAGA-CATGTTTGGGACAT-GCGTCAG-TTATGAGATGATAGT-C-AGTGTAAGA
1 AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT-TGAGAT-A-AGTGCTAGTGTAAGA
*
62600864 CCATGTCTGGGACACAGCATC
63 -CAAGTCTGGGACA-AGCATC
62600885 AACACCTTAC
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
91 1 0.01
92 20 0.29
93 26 0.38
94 22 0.32
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (94 bp):
AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGATAAGTGCTAGTGTAAGACAA
GTCTGGGACAAGCATCGACCTCGAGATGT
Found at i:62604420 original size:80 final size:80
Alignment explanation
Indices: 62604336--62604484 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
62604326 TATGGTAACC
* * * *
62604336 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
62604400 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
62604416 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
62604481 CCGG
66 CCGG
62604485 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:62604426 original size:40 final size:38
Alignment explanation
Indices: 62604377--62604484 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
62604367 ATCACGATTT
*
62604377 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
62604417 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
62604457 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
62604485 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:62616384 original size:2 final size:2
Alignment explanation
Indices: 62616377--62616415 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
62616367 GGCGTTACAG
62616377 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62616416 GGCAATTCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:62624694 original size:44 final size:43
Alignment explanation
Indices: 62624631--62624784 Score: 136
Period size: 43 Copynumber: 3.6 Consensus size: 43
62624621 ATGTGTTCTT
** *
62624631 GTGTAAGACCAGGTCTGGGATGTTGGCATCGACTTATGATTTAC
1 GTGTAAGACCACATCTGGGACGTTGGCATCGACTT-TGATTTAC
*
62624675 GTGTAAGACCACATCTGGGACGTTGGCATTG-CATTTGATTT-C
1 GTGTAAGACCACATCTGGGACGTTGGCATCGAC-TTTGATTTAC
* ** * *
62624717 GTATAAGACC-CTATCTGGGACAATGGCATCAATATTTGA-TTAC
1 GTGTAAGACCAC-ATCTGGGACGTTGGCATCGA-CTTTGATTTAC
* * *
62624760 ATGTAAGACCACGTCTGGGATGTTG
1 GTGTAAGACCACATCTGGGACGTTG
62624785 TCATTGTACA
Statistics
Matches: 88, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.31
43 30 0.34
44 30 0.34
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCACATCTGGGACGTTGGCATCGACTTTGATTTAC
Found at i:62624736 original size:42 final size:44
Alignment explanation
Indices: 62624634--62624746 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 44
62624624 TGTTCTTGTG
** * *
62624634 TAAGACCAGGTCTGGGATGTTGGCATCGACTTATGATTTACGTG
1 TAAGACCACATCTGGGACGTTGGCATCGACTTATGATTTACGTA
*
62624678 TAAGACCACATCTGGGACGTTGGCATTG-CATT-TGATTT-CGTA
1 TAAGACCACATCTGGGACGTTGGCATCGAC-TTATGATTTACGTA
**
62624720 TAAGACC-CTATCTGGGACAATGGCATC
1 TAAGACCAC-ATCTGGGACGTTGGCATC
62624747 AATATTTGAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.02
42 25 0.42
43 7 0.12
44 26 0.44
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (44 bp):
TAAGACCACATCTGGGACGTTGGCATCGACTTATGATTTACGTA
Found at i:62626451 original size:24 final size:24
Alignment explanation
Indices: 62626419--62626505 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
62626409 AATCTCAAAT
62626419 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
62626443 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
62626467 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
62626491 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
62626506 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:62626471 original size:48 final size:48
Alignment explanation
Indices: 62626419--62626527 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
62626409 AATCTCAAAT
** *
62626419 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
62626467 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
62626515 GCACTATGTGTGC
1 GCACTATGTGTGC
62626528 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:62626518 original size:24 final size:24
Alignment explanation
Indices: 62626419--62626527 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
62626409 AATCTCAAAT
*
62626419 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
62626443 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
62626467 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
62626491 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
62626515 GCACTATGTGTGC
1 GCACTATGTGTGC
62626528 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:62634234 original size:24 final size:24
Alignment explanation
Indices: 62634202--62634288 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
62634192 AATCTCAAAT
62634202 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
62634226 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
62634250 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
62634274 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
62634289 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:62634254 original size:48 final size:48
Alignment explanation
Indices: 62634202--62634310 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
62634192 AATCTCAAAT
** *
62634202 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
62634250 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
62634298 GCACTATGTGTGC
1 GCACTATGTGTGC
62634311 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:62634301 original size:24 final size:24
Alignment explanation
Indices: 62634202--62634310 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
62634192 AATCTCAAAT
*
62634202 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
62634226 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
62634250 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
62634274 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
62634298 GCACTATGTGTGC
1 GCACTATGTGTGC
62634311 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:62637538 original size:38 final size:38
Alignment explanation
Indices: 62637480--62637566 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 38
62637470 CACTGACATC
* *
62637480 AAGCTTGCTAGGCACTAAGCCTGAA-TAACACCA-GCACT
1 AAGCCTGCTAGGCACAAAGCCT-AATTAACA-CATGCACT
* *
62637518 GAGCCTGCTAGGTACAAAGCCTAATTAACACATGCACT
1 AAGCCTGCTAGGCACAAAGCCTAATTAACACATGCACT
*
62637556 AAGCCTACTAG
1 AAGCCTGCTAG
62637567 CCACTAAACC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
37 4 0.10
38 37 0.90
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (38 bp):
AAGCCTGCTAGGCACAAAGCCTAATTAACACATGCACT
Found at i:62640116 original size:5 final size:5
Alignment explanation
Indices: 62640108--62640132 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
62640098 AAAAATAAAA
62640108 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
62640133 GACCTGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:62641216 original size:13 final size:13
Alignment explanation
Indices: 62641200--62641228 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
62641190 GTTTGAATTA
62641200 AATGATAATGCCC
1 AATGATAATGCCC
62641213 AATGATAATGCCC
1 AATGATAATGCCC
62641226 AAT
1 AAT
62641229 AAATGTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (13 bp):
AATGATAATGCCC
Found at i:62644772 original size:40 final size:40
Alignment explanation
Indices: 62644713--62644854 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
62644703 AAATTGAATG
* * *
62644713 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
62644753 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
62644793 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
62644833 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
62644855 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:62644855 original size:40 final size:39
Alignment explanation
Indices: 62644752--62644880 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
62644742 TGCTGGAAAT
* * *
62644752 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
62644792 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
62644832 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
62644872 TATATCCGG
1 TATATCCGG
62644881 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:62652792 original size:40 final size:40
Alignment explanation
Indices: 62652726--62652892 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
62652716 AAATTGAATG
* * *
62652726 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
62652765 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
62652805 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
62652845 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
62652885 ATATCCGG
1 ATATCCGG
62652893 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:62660802 original size:40 final size:40
Alignment explanation
Indices: 62660743--62660884 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
62660733 AAATTGAATG
* * *
62660743 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
62660783 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
62660823 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
62660863 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
62660885 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:62660885 original size:40 final size:39
Alignment explanation
Indices: 62660782--62660910 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
62660772 TGCTGGAAAT
* * *
62660782 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
62660822 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
62660862 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
62660902 TATATCCGG
1 TATATCCGG
62660911 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:62666817 original size:32 final size:33
Alignment explanation
Indices: 62666781--62666853 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
62666771 GTGTGCGAGG
* *
62666781 CACGGGCTAGACCAAT-TGAGCCGTGTGATCCA
1 CACGGGCAAGACCAATCTGAGCCGTGTGAGCCA
* * *
62666813 CACGGGCAAGGCCAATCTGGGTCGTGTGAGCCA
1 CACGGGCAAGACCAATCTGAGCCGTGTGAGCCA
62666846 CACGGGCA
1 CACGGGCA
62666854 TGTGGGCTCG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
32 14 0.40
33 21 0.60
ACGTcount: A:0.23, C:0.29, G:0.33, T:0.15
Consensus pattern (33 bp):
CACGGGCAAGACCAATCTGAGCCGTGTGAGCCA
Found at i:62668530 original size:3 final size:3
Alignment explanation
Indices: 62668522--62668572 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
62668512 GCCTCAAACT
62668522 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
62668569 ATA A
1 ATA A
62668573 ATAAGCTCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:62670093 original size:41 final size:43
Alignment explanation
Indices: 62670027--62670107 Score: 130
Period size: 41 Copynumber: 1.9 Consensus size: 43
62670017 TAGGACGTTG
62670027 GCATCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCA
1 GCATCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCA
* *
62670070 GCATCG-TATTTGATT-CGTGTAAGACCCTGTCTGGGACA
1 GCATCGATATGTGATTACGTGTAAGACCATGTCTGGGACA
62670108 GTGGCATCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 22 0.61
42 8 0.22
43 6 0.17
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
GCATCGATATGTGATTACGTGTAAGACCATGTCTGGGACATCA
Found at i:62670115 original size:41 final size:41
Alignment explanation
Indices: 62670025--62670120 Score: 124
Period size: 41 Copynumber: 2.3 Consensus size: 41
62670015 TCTAGGACGT
*
62670025 TGGCATCGATATGTGATTACGTGTAAGACCATGTCTGGGACA
1 TGGCATCG-TATTTGATTACGTGTAAGACCATGTCTGGGACA
* *
62670067 TCAGCATCGTATTTGATT-CGTGTAAGACCCTGTCTGGGACA
1 T-GGCATCGTATTTGATTACGTGTAAGACCATGTCTGGGACA
62670108 GTGGCATCG-ATTT
1 -TGGCATCGTATTT
62670121 ATCGATATGT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
40 4 0.08
41 28 0.58
42 10 0.21
43 6 0.12
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (41 bp):
TGGCATCGTATTTGATTACGTGTAAGACCATGTCTGGGACA
Found at i:62680364 original size:43 final size:42
Alignment explanation
Indices: 62680314--62680416 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 42
62680304 AAAACCACAA
62680314 CTAGGACATTGGCATCGATATGTGATTACGTGTAAGACCATGT
1 CTAGGACATTGGCATCGATATGTGATT-CGTGTAAGACCATGT
* ** * *
62680357 CTGGGACATCAGCATCG-TATTTGATTCGTGTAAGACCCTGT
1 CTAGGACATTGGCATCGATATGTGATTCGTGTAAGACCATGT
*
62680398 CTAGGACAGTGGCATCGAT
1 CTAGGACATTGGCATCGAT
62680417 TTATCGATAT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
41 27 0.54
42 9 0.18
43 14 0.28
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
CTAGGACATTGGCATCGATATGTGATTCGTGTAAGACCATGT
Found at i:62691250 original size:19 final size:19
Alignment explanation
Indices: 62691226--62691264 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
62691216 AATAATTATT
*
62691226 TATTATTTA-TACATGTGTA
1 TATTA-TTAGTACATATGTA
62691245 TATTATTAGTACATATGTA
1 TATTATTAGTACATATGTA
62691264 T
1 T
62691265 CCATATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAGTACATATGTA
Found at i:62691316 original size:16 final size:15
Alignment explanation
Indices: 62691289--62691327 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
62691279 ACACTTGTCT
62691289 TTTATTTA-TTATAC
1 TTTATTTATTTATAC
*
62691303 TTTATATTATTTATAT
1 TTTAT-TTATTTATAC
62691319 TTTATTTAT
1 TTTATTTAT
62691328 AATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 7 0.32
16 10 0.45
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTTATTTATAC
Found at i:62691325 original size:11 final size:13
Alignment explanation
Indices: 62691307--62691338 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
62691297 TTATACTTTA
62691307 TATTATTTAT-AT
1 TATTATTTATAAT
62691319 T-TTATTTATAAT
1 TATTATTTATAAT
62691331 TATTATTT
1 TATTATTT
62691339 CTTAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.44
12 4 0.22
13 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTATTTATAAT
Found at i:62695329 original size:93 final size:93
Alignment explanation
Indices: 62695217--62695388 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62695207 GCCCATAAGT
* *
62695217 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62695282 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
62695310 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62695375 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
62695389 AAATATCCAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62695384 original size:46 final size:46
Alignment explanation
Indices: 62695209--62695384 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
62695199 TGTAACCCGC
* * *
62695209 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
62695255 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
62695305 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
62695348 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62695385 TGCCAAATAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:62697811 original size:30 final size:30
Alignment explanation
Indices: 62697767--62697855 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
62697757 CAAAGATAAC
62697767 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
62697796 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
62697826 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
62697856 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Done.